explore_dataVariants
FD, NOR, FB
26-March-2021
today <- Sys.Date() # today's dateMise à jour du 2021-03-26.
Source des données : https://www.data.gouv.fr/fr/datasets/donnees-de-laboratoires-pour-le-depistage-indicateurs-sur-les-variants/
QUESTIONS:
- Ajouter données Flash ? Pour avoir des points plus anciens
Légende
library("RColorBrewer")
brw <- brewer.pal(12, "Set3")
brw[2] <- brw[12] # Darker yellow
brw[10] <- brw[11] # Lighter shade
colsAge <- c("#000000FF", brw[1:10])
names(colsAge) <- c("0", "9", "19", "29", "39", "49", "59", "69", "79", "89", "90")
pchAge <- c(16, 0:9)
names(pchAge) <- names(colsAge)
cexAge <- c(1.2, rep(1, 10))
names(cexAge) <- names(colsAge)
ages <- c("tous", "0-9", "10-19", "20-29", "30-39", "40-49", "50-59", "60-69", "70-79", "80-89", "90+")par(mfrow = c(1, 1))
plot(0:1, 0:1, type = "n", axes = FALSE, xlab = "", ylab = "")
legend(x = 0.5, y = 1, legend = ages, pch = pchAge, col = colsAge)
Données France
Load data
# Données France
URL <- "https://www.data.gouv.fr/fr/datasets/r/c43d7f3f-c9f5-436b-9b26-728f80e0fd52"
dataFile <- paste0("data/France_", today, ".csv") # name file with today's date
download.file(URL, dataFile) # download file from repo
dat.France <- read.csv(dataFile, sep = ";", stringsAsFactors = FALSE)
# Format date
dat.France$date1 <- as.Date(substring(dat.France$semaine, 1, 10))
dat.France$date2 <- as.Date(substring(dat.France$semaine, 12, 21))
# Rewrite time as days since beginning of the data
dat.France$time <- dat.France$date2 - min(dat.France$date2)
# Compute data on total tests
dat.France$Nb_tests_POS <- dat.France$Nb_tests_PCR_TA_crible / (dat.France$Prc_tests_PCR_TA_crible / 100)
# Dictionnary to reformat age class
dic.age <- (0:9)*10 + 4.5 # Median of age classes
names(dic.age) <- as.character(c(0 + (0:8)*10 + 9, 90))Compare the data to another source – number of positive tests
# Compare to another source
URL <- "https://www.data.gouv.fr/fr/datasets/r/dd0de5d9-b5a5-4503-930a-7b08dc0adc7c"
dataFile <- paste0("data/tests-France_", today, ".csv") # name file with today's date
download.file(URL, dataFile) # download file from repo
dat.tests <- read.csv(dataFile, sep = ";", stringsAsFactors = FALSE)
URL <- "https://www.data.gouv.fr/fr/datasets/r/c1167c4e-8c89-40f2-adb3-1954f8fedfa7"
dataFile <- paste0("data/tests7j-France_", today, ".csv") # name file with today's date
download.file(URL, dataFile) # download file from repo
dat.tests7j <- read.csv(dataFile, sep = ";", stringsAsFactors = FALSE)
dat.tests7j$date1 <- as.Date(substring(dat.tests7j$semaine_glissante, 1, 10))
dat.tests7j$date2 <- as.Date(substring(dat.tests7j$semaine_glissante, 12, 21))
# P nombre de tests positifs
# T nombre de tests total
dat.tests$date <- as.Date(dat.tests$jour)
dateRange <- range(c(range(dat.France$date1), range(dat.France$date2)))
subdat.tests <- dat.tests[dat.tests$date >= dateRange[1] & dat.tests$date <= dateRange[2],]
# Function to compute a sliding window
sliding.window <- function(v, winwdt = 7, pos = 4, na.rm = TRUE){
# v vector to be averaged/summed
# winwdt width of the window
# pos position of the focal day in the window
# FUN function to apply
n <- length(v)
# Initialize output vector
out <- 0 * v + (-1)
out[1:(pos-1)] <- NA
out[(n + 1 - winwdt + pos) : n] <- NA
for(i in pos : (n - winwdt + pos)){
out[i] <- mean(v[(i - pos + 1):(i + winwdt - pos)], na.rm = na.rm)
}
return(out[1:n])
}
subdat.tests.0 <- subdat.tests[subdat.tests$cl_age90 == 0, ]
dat.France.0 <- dat.France[dat.France$cl_age90 == 0, ]
subdat.tests.0$P.7.1 <- 7 * sliding.window(subdat.tests.0$P, pos = 1)
subdat.tests.0$P.7.4 <- 7 * sliding.window(subdat.tests.0$P, pos = 4)
subdat.tests.0$P.7.7 <- 7 * sliding.window(subdat.tests.0$P, pos = 7)
subdat.tests.0$P.8.8 <- 8 * sliding.window(subdat.tests.0$P, pos = 8, winwdt = 8)
plot(dat.France.0$date2, dat.France.0$Nb_tests_POS, ylim = c(1*10^5, 2*10^5), pch = 16,
xlab = "date", ylab = "nombre de tests")
points(subdat.tests.0$date, subdat.tests.0$P.7.1, ylim = c(0, 5*10^5), col = "red")
points(subdat.tests.0$date, subdat.tests.0$P.7.4, ylim = c(0, 5*10^5), col = "green")
points(subdat.tests.0$date, subdat.tests.0$P.7.7, ylim = c(0, 5*10^5), col = "blue")
points(subdat.tests.0$date, subdat.tests.0$P.8.8, ylim = c(0, 5*10^5), col = "purple")
points(dat.tests7j$date2, dat.tests7j$P, pch = 2)
legend(x = as.Date("2021-02-18"), y = 200000, col = c("black", "red", "green", "blue", "purple", "black"), legend = c("sidep tests", "w7, c1", "w7, c4", "w7, c7", "w8, c8", "sidep 7j-fin"), pch = c(16, rep(1, 4), 2))
Legend notation:
w: width of the window, c: position of the index day.
So the sliding window is on the 7 last days.
The difference (about 15% more positives in the variants dataset) may be due to the variant data being in terms of tests, and the other in terms of people, with duplicates removed.
#plot(dat.France.0$date2, dat.France.0$Nb_tests, ylim = c(1*10^5, 2*10^5), pch = 16,
# xlab = "date", ylab = "comparaison nombre de tests")
#points(subdat.tests.0$date, subdat.tests.0$P.7.7, ylim = c(0, 5*10^5), col = "blue")
#points(subdat.tests.0$date, 1.17*subdat.tests.0$P.7.7, ylim = c(0, 5*10^5), col = "orange")Format the data further (age class data)
# Data per age class
dat.France.ages <- dat.France[dat.France$cl_age90 != 0,]
# Add new age class code -- median of the age class
dat.France.ages$ageClass <- dic.age[as.character(dat.France.ages$cl_age90)]
# Standardize age class values
dat.France.ages$stdage <- (dat.France.ages$ageClass - mean(dat.France.ages$ageClass))/dat.France.ages$ageClassV1
Compute r
names(dat.France)## [1] "fra" "semaine"
## [3] "cl_age90" "Nb_tests_PCR_TA_crible"
## [5] "Prc_tests_PCR_TA_crible" "Nb_susp_501Y_V1"
## [7] "Prc_susp_501Y_V1" "Nb_susp_501Y_V2_3"
## [9] "Prc_susp_501Y_V2_3" "Nb_susp_IND"
## [11] "Prc_susp_IND" "Nb_susp_ABS"
## [13] "Prc_susp_ABS" "date1"
## [15] "date2" "time"
## [17] "Nb_tests_POS"dat.France$rABS <- NA
dat.France$rV1 <- NA
dat.France$rV23 <- NA
for(iage in unique(dat.France$cl_age90)){
ilines <- which(dat.France$cl_age90 == iage)
sub <- dat.France[ilines, ]
dat.France[ilines, "rABS"] <- c(diff(sub$Nb_susp_ABS), NA)
dat.France[ilines, "rV1"] <- c(diff(sub$Nb_susp_501Y_V1), NA)
dat.France[ilines, "rV23"] <- c(diff(sub$Nb_susp_501Y_V2_3), NA)
}Plot
# All ages, time
par(las = 1)
plot(dat.France$date2, dat.France$Prc_susp_501Y_V1, ylim = c(0, 100),
col = colsAge[as.character(dat.France$cl_age90)],
pch = pchAge[as.character(dat.France$cl_age90)],
cex = cexAge[as.character(dat.France$cl_age90)],
xlab = "date", ylab = "Proportion V1", axes = FALSE)
axis(1, pos = 0, at = as.Date(unique(dat.France$date2)), labels = format(unique(dat.France$date2), format = "%b %d"))
axis(2)
# Plot dp/(p(1-p)) for each age class
ageClasses <- sort(unique(dat.France$cl_age90))
nAge <- length(ageClasses)
dat.France$s <- NA
dat.France$diffTot <- NA
for(iage in unique(dat.France$cl_age90)){
ilines <- which(dat.France$cl_age90 == iage)
sub <- dat.France[ilines, ]
V1 <- sub$Prc_susp_501Y_V1/100
t <- sub$date2
s <- diff(V1) / (V1[-length(V1)]*(1-V1[-length(V1)]))
V2 <- log(V1/(1-V1)) # Logit
s2 <- diff(V2)
plot(t[-length(V1)], s, ylim = c(-0.1, 0.1), main = iage)
lines(t[-length(V2)], s2, col = 2)
print(c(iage, mean(s)))
dat.France[ilines, "s"] <- c(s2, NA)
dat.France[ilines, "diffTot"] <- c(diff(sub$Nb_tests_POS), NA)
}Test
Binomial model
# Create new colums with information on number of specific PCR tests
# PCR with V1 result
dat.France.ages$V1 <- dat.France.ages$Nb_susp_501Y_V1
# All other PCRs (considering NAs are non-V1)
dat.France.ages$notV1 <- dat.France.ages$Nb_tests_PCR_TA_crible - dat.France.ages$Nb_susp_501Y_V1
# All other PCRs with a result (removing NAs)
dat.France.ages$notV1.narm <- dat.France.ages$Nb_susp_501Y_V2_3 + dat.France.ages$Nb_susp_ABS
# Check that columns correctly sum
all(dat.France.ages$Nb_susp_501Y_V2_3 + dat.France.ages$Nb_susp_ABS + dat.France.ages$Nb_susp_501Y_V1 + dat.France.ages$Nb_susp_IND - dat.France.ages$Nb_tests_PCR_TA_crible == 0)## [1] TRUEGLM, assume that all indeterminate PCRs are non-V1
- Age as factor, compare models without and with interaction between age and time
# GLM
# Assuming that all IND (indetermine) are non-V1
mdl0 <- glm(cbind(V1, notV1) ~ time * factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl0)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time * factor(ageClass), family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -7.4216 -1.4031 0.0908 1.7832 6.0313
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 0.1158181 0.0105318 11.00 <2e-16 ***
## time 0.0338029 0.0005279 64.03 <2e-16 ***
## factor(ageClass)14.5 -0.1367377 0.0121761 -11.23 <2e-16 ***
## factor(ageClass)24.5 -0.1847319 0.0119975 -15.40 <2e-16 ***
## factor(ageClass)34.5 -0.1455183 0.0119852 -12.14 <2e-16 ***
## factor(ageClass)44.5 -0.1387506 0.0119699 -11.59 <2e-16 ***
## factor(ageClass)54.5 -0.2477816 0.0120790 -20.51 <2e-16 ***
## factor(ageClass)64.5 -0.3753415 0.0126355 -29.70 <2e-16 ***
## factor(ageClass)74.5 -0.5865129 0.0137576 -42.63 <2e-16 ***
## factor(ageClass)84.5 -0.8928445 0.0148790 -60.01 <2e-16 ***
## factor(ageClass)94.5 -1.0904669 0.0185105 -58.91 <2e-16 ***
## time:factor(ageClass)14.5 0.0096167 0.0006184 15.55 <2e-16 ***
## time:factor(ageClass)24.5 0.0104310 0.0006111 17.07 <2e-16 ***
## time:factor(ageClass)34.5 0.0096891 0.0006110 15.86 <2e-16 ***
## time:factor(ageClass)44.5 0.0103130 0.0006112 16.87 <2e-16 ***
## time:factor(ageClass)54.5 0.0119274 0.0006184 19.29 <2e-16 ***
## time:factor(ageClass)64.5 0.0130909 0.0006489 20.18 <2e-16 ***
## time:factor(ageClass)74.5 0.0178774 0.0007169 24.94 <2e-16 ***
## time:factor(ageClass)84.5 0.0204365 0.0007869 25.97 <2e-16 ***
## time:factor(ageClass)94.5 0.0237752 0.0010203 23.30 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 178561.3 on 329 degrees of freedom
## Residual deviance: 2075.7 on 310 degrees of freedom
## AIC: 5228.7
##
## Number of Fisher Scoring iterations: 3# Without interaction
mdl1 <- glm(cbind(V1, notV1) ~ time + factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl1)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time + factor(ageClass), family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -9.4000 -1.7970 0.7517 2.4016 6.2868
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -0.0799313 0.0054904 -14.558 < 2e-16 ***
## time 0.0450787 0.0001194 377.575 < 2e-16 ***
## factor(ageClass)14.5 0.0317311 0.0059322 5.349 8.85e-08 ***
## factor(ageClass)24.5 -0.0026336 0.0058491 -0.450 0.653
## factor(ageClass)34.5 0.0248353 0.0058648 4.235 2.29e-05 ***
## factor(ageClass)44.5 0.0417276 0.0058654 7.114 1.13e-12 ***
## factor(ageClass)54.5 -0.0417327 0.0059193 -7.050 1.79e-12 ***
## factor(ageClass)64.5 -0.1505602 0.0061890 -24.327 < 2e-16 ***
## factor(ageClass)74.5 -0.2865690 0.0067666 -42.351 < 2e-16 ***
## factor(ageClass)84.5 -0.5559603 0.0074320 -74.806 < 2e-16 ***
## factor(ageClass)94.5 -0.7118392 0.0096171 -74.018 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 178561.3 on 329 degrees of freedom
## Residual deviance: 3270.8 on 319 degrees of freedom
## AIC: 6405.8
##
## Number of Fisher Scoring iterations: 3## Likelihood ratio test
anova(mdl1, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1) ~ time + factor(ageClass)
## Model 2: cbind(V1, notV1) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 319 3270.8
## 2 310 2075.7 9 1195.1 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1- Age as quantitative
# Test date effect
mdl2 <- glm(cbind(V1, notV1) ~ time * ageClass, data = dat.France.ages, family = "binomial")
summary(mdl2)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time * ageClass, family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -13.954 -5.950 -1.089 3.207 10.613
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 2.267e-01 4.780e-03 47.42 <2e-16 ***
## time 3.715e-02 2.546e-04 145.90 <2e-16 ***
## ageClass -8.781e-03 9.919e-05 -88.52 <2e-16 ***
## time:ageClass 1.911e-04 5.386e-06 35.48 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 178561 on 329 degrees of freedom
## Residual deviance: 10544 on 326 degrees of freedom
## AIC: 13665
##
## Number of Fisher Scoring iterations: 3## Likelihood ratio test
anova(mdl2, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1) ~ time * ageClass
## Model 2: cbind(V1, notV1) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 326 10543.7
## 2 310 2075.7 16 8467.9 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1GLM, ignore indeterminate PCRs
- Age as factor, compare models without and with interaction between age and time
# GLM
# Assuming that all IND (indetermine) are non-V1
mdl0.narm <- glm(cbind(V1, notV1.narm) ~ time * factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl0.narm)##
## Call:
## glm(formula = cbind(V1, notV1.narm) ~ time * factor(ageClass),
## family = "binomial", data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -6.3117 -1.1223 0.1249 1.4628 5.6532
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 0.2799441 0.0116366 24.057 < 2e-16 ***
## time 0.0494411 0.0006183 79.958 < 2e-16 ***
## factor(ageClass)14.5 -0.1780612 0.0133623 -13.326 < 2e-16 ***
## factor(ageClass)24.5 -0.2059935 0.0131859 -15.622 < 2e-16 ***
## factor(ageClass)34.5 -0.1618812 0.0131662 -12.295 < 2e-16 ***
## factor(ageClass)44.5 -0.1765850 0.0131427 -13.436 < 2e-16 ***
## factor(ageClass)54.5 -0.2819379 0.0132438 -21.288 < 2e-16 ***
## factor(ageClass)64.5 -0.4101300 0.0138042 -29.711 < 2e-16 ***
## factor(ageClass)74.5 -0.6138385 0.0149717 -41.000 < 2e-16 ***
## factor(ageClass)84.5 -0.9149864 0.0160652 -56.955 < 2e-16 ***
## factor(ageClass)94.5 -1.1407116 0.0197676 -57.706 < 2e-16 ***
## time:factor(ageClass)14.5 0.0055827 0.0007168 7.789 6.77e-15 ***
## time:factor(ageClass)24.5 0.0063247 0.0007096 8.913 < 2e-16 ***
## time:factor(ageClass)34.5 0.0043450 0.0007086 6.132 8.67e-10 ***
## time:factor(ageClass)44.5 0.0058429 0.0007089 8.242 < 2e-16 ***
## time:factor(ageClass)54.5 0.0062815 0.0007151 8.784 < 2e-16 ***
## time:factor(ageClass)64.5 0.0063192 0.0007455 8.476 < 2e-16 ***
## time:factor(ageClass)74.5 0.0116894 0.0008192 14.270 < 2e-16 ***
## time:factor(ageClass)84.5 0.0134442 0.0008891 15.121 < 2e-16 ***
## time:factor(ageClass)94.5 0.0194138 0.0011441 16.969 < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 214316.6 on 329 degrees of freedom
## Residual deviance: 1590.3 on 310 degrees of freedom
## AIC: 4673.7
##
## Number of Fisher Scoring iterations: 3# Without interaction
mdl1.narm <- glm(cbind(V1, notV1.narm) ~ time + factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl1.narm)##
## Call:
## glm(formula = cbind(V1, notV1.narm) ~ time + factor(ageClass),
## family = "binomial", data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -8.037 -1.435 0.281 1.867 6.869
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 0.175815 0.006310 27.86 <2e-16 ***
## time 0.055914 0.000134 417.31 <2e-16 ***
## factor(ageClass)14.5 -0.087726 0.006841 -12.82 <2e-16 ***
## factor(ageClass)24.5 -0.104123 0.006757 -15.41 <2e-16 ***
## factor(ageClass)34.5 -0.089889 0.006767 -13.28 <2e-16 ***
## factor(ageClass)44.5 -0.081872 0.006762 -12.11 <2e-16 ***
## factor(ageClass)54.5 -0.180678 0.006808 -26.54 <2e-16 ***
## factor(ageClass)64.5 -0.308348 0.007078 -43.56 <2e-16 ***
## factor(ageClass)74.5 -0.431330 0.007686 -56.12 <2e-16 ***
## factor(ageClass)84.5 -0.708295 0.008343 -84.89 <2e-16 ***
## factor(ageClass)94.5 -0.857404 0.010591 -80.96 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 214316.6 on 329 degrees of freedom
## Residual deviance: 2146.9 on 319 degrees of freedom
## AIC: 5212.4
##
## Number of Fisher Scoring iterations: 3## Likelihood ratio test
anova(mdl1.narm, mdl0.narm, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1.narm) ~ time + factor(ageClass)
## Model 2: cbind(V1, notV1.narm) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 319 2146.9
## 2 310 1590.3 9 556.68 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1- Age as quantitative
# Test date effect
mdl2.narm <- glm(cbind(V1, notV1.narm) ~ time * ageClass, data = dat.France.ages, family = "binomial")
summary(mdl2.narm)##
## Call:
## glm(formula = cbind(V1, notV1.narm) ~ time * ageClass, family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -12.903 -4.483 -1.010 2.593 11.110
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 3.671e-01 5.168e-03 71.02 <2e-16 ***
## time 5.038e-02 2.890e-04 174.33 <2e-16 ***
## ageClass -8.908e-03 1.066e-04 -83.57 <2e-16 ***
## time:ageClass 1.327e-04 6.057e-06 21.92 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 214316.6 on 329 degrees of freedom
## Residual deviance: 7885.6 on 326 degrees of freedom
## AIC: 10937
##
## Number of Fisher Scoring iterations: 3## Likelihood ratio test
anova(mdl2.narm, mdl0.narm, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1.narm) ~ time * ageClass
## Model 2: cbind(V1, notV1.narm) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 326 7885.6
## 2 310 1590.3 16 6295.4 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1plot(dat.France$diffTot, dat.France$s,
xlab = "Increase in total number of positive tests over 1 day",
ylab = "s")
all(is.na(dat.France$diffTot) == is.na(dat.France$s))
lineRemove <- is.na(dat.France$diffTot)
mdl <- lm(dat.France$s[!lineRemove] ~ dat.France$diffTot[!lineRemove])
summary(mdl)
cor.test(dat.France$diffTot[!lineRemove], dat.France$s[!lineRemove])No effet of epidemic growth on selective advantage of the variant
V2/V3
Plot
# All ages, time
par(las = 1)
plot(dat.France$date2, dat.France$Prc_susp_501Y_V2_3, ylim = c(0, 100),
col = colsAge[as.character(dat.France$cl_age90)],
pch = pchAge[as.character(dat.France$cl_age90)],
cex = cexAge[as.character(dat.France$cl_age90)],
xlab = "date", ylab = "Proportion V2/V3", axes = FALSE)
axis(1, pos = 0, at = as.Date(unique(dat.France$date2)), labels = format(unique(dat.France$date2), format = "%b %d"))
axis(2)
Test
Binomial
# Create new colums with information on number of specific PCR tests
# PCR with V2/V3 result
dat.France.ages$V23 <- dat.France.ages$Nb_susp_501Y_V2_3
# All other PCRs (considering NAs are non-V23)
dat.France.ages$notV23 <- dat.France.ages$Nb_tests_PCR_TA_crible - dat.France.ages$Nb_susp_501Y_V2_3
# All other PCRs with a result (removing NAs)
dat.France.ages$notV23.narm <- dat.France.ages$Nb_susp_501Y_V1 + dat.France.ages$Nb_susp_ABSGLM, assume that all indeterminate PCRs are non-V1
- Age as factor, compare models without and with interaction between age and time
# GLM
# Assuming that all IND (indetermine) are non-V23
mdl0 <- glm(cbind(V23, notV23) ~ time * factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl0)##
## Call:
## glm(formula = cbind(V23, notV23) ~ time * factor(ageClass), family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -4.6092 -1.1560 -0.1338 0.8695 4.5432
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -3.0102315 0.0244252 -123.243 < 2e-16 ***
## time -0.0026109 0.0011838 -2.205 0.027419 *
## factor(ageClass)14.5 0.2172266 0.0277527 7.827 4.99e-15 ***
## factor(ageClass)24.5 0.1550904 0.0274089 5.658 1.53e-08 ***
## factor(ageClass)34.5 0.0905059 0.0275266 3.288 0.001009 **
## factor(ageClass)44.5 0.0331989 0.0276229 1.202 0.229419
## factor(ageClass)54.5 0.0566652 0.0277870 2.039 0.041423 *
## factor(ageClass)64.5 0.1469420 0.0287324 5.114 3.15e-07 ***
## factor(ageClass)74.5 -0.2696790 0.0330185 -8.168 3.15e-16 ***
## factor(ageClass)84.5 -0.3863796 0.0365790 -10.563 < 2e-16 ***
## factor(ageClass)94.5 -0.2759273 0.0447587 -6.165 7.06e-10 ***
## time:factor(ageClass)14.5 -0.0071626 0.0013640 -5.251 1.51e-07 ***
## time:factor(ageClass)24.5 0.0001497 0.0013431 0.111 0.911256
## time:factor(ageClass)34.5 0.0008788 0.0013491 0.651 0.514810
## time:factor(ageClass)44.5 0.0016425 0.0013549 1.212 0.225420
## time:factor(ageClass)54.5 0.0034518 0.0013646 2.529 0.011424 *
## time:factor(ageClass)64.5 0.0023320 0.0014170 1.646 0.099827 .
## time:factor(ageClass)74.5 0.0129145 0.0016332 7.908 2.62e-15 ***
## time:factor(ageClass)84.5 0.0149596 0.0018472 8.099 5.55e-16 ***
## time:factor(ageClass)94.5 0.0081218 0.0024139 3.365 0.000766 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 2306.56 on 329 degrees of freedom
## Residual deviance: 851.92 on 310 degrees of freedom
## AIC: 3474.1
##
## Number of Fisher Scoring iterations: 3# Without interaction
mdl1 <- glm(cbind(V23, notV23) ~ time + factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl1)##
## Call:
## glm(formula = cbind(V23, notV23) ~ time + factor(ageClass), family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -5.2756 -1.3630 -0.0572 1.3379 5.7565
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -3.035999 0.012236 -248.127 < 2e-16 ***
## time -0.001207 0.000255 -4.732 2.22e-06 ***
## factor(ageClass)14.5 0.094876 0.013024 7.285 3.22e-13 ***
## factor(ageClass)24.5 0.159246 0.012793 12.448 < 2e-16 ***
## factor(ageClass)34.5 0.107256 0.012881 8.327 < 2e-16 ***
## factor(ageClass)44.5 0.063036 0.012936 4.873 1.10e-06 ***
## factor(ageClass)54.5 0.117168 0.013017 9.001 < 2e-16 ***
## factor(ageClass)64.5 0.188406 0.013506 13.949 < 2e-16 ***
## factor(ageClass)74.5 -0.049456 0.015491 -3.193 0.00141 **
## factor(ageClass)84.5 -0.142987 0.017705 -8.076 6.70e-16 ***
## factor(ageClass)94.5 -0.151908 0.023460 -6.475 9.47e-11 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 2306.6 on 329 degrees of freedom
## Residual deviance: 1234.8 on 319 degrees of freedom
## AIC: 3839
##
## Number of Fisher Scoring iterations: 4## Likelihood ratio test
anova(mdl1, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V23, notV23) ~ time + factor(ageClass)
## Model 2: cbind(V23, notV23) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 319 1234.83
## 2 310 851.92 9 382.91 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1- Age as quantitative
# Test date effect
mdl2 <- glm(cbind(V23, notV23) ~ time * ageClass, data = dat.France.ages, family = "binomial")
summary(mdl2)##
## Call:
## glm(formula = cbind(V23, notV23) ~ time * ageClass, family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -5.2210 -2.0846 -0.7215 1.0707 6.0041
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -2.750e+00 1.050e-02 -261.78 <2e-16 ***
## time -9.696e-03 5.358e-04 -18.09 <2e-16 ***
## ageClass -4.790e-03 2.249e-04 -21.30 <2e-16 ***
## time:ageClass 2.100e-04 1.157e-05 18.16 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 2306.6 on 329 degrees of freedom
## Residual deviance: 1834.2 on 326 degrees of freedom
## AIC: 4424.4
##
## Number of Fisher Scoring iterations: 4## Likelihood ratio test
anova(mdl2, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V23, notV23) ~ time * ageClass
## Model 2: cbind(V23, notV23) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 326 1834.23
## 2 310 851.92 16 982.31 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1GLM, ignore indeterminate PCRs
- Age as factor, compare models without and with interaction between age and time
# GLM
# Assuming that all IND (indetermine) are non-V23
mdl0.narm <- glm(cbind(V23, notV23.narm) ~ time * factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl0.narm)##
## Call:
## glm(formula = cbind(V23, notV23.narm) ~ time * factor(ageClass),
## family = "binomial", data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -4.4884 -1.1668 -0.1119 0.9370 4.3777
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -2.9065838 0.0245190 -118.544 < 2e-16 ***
## time -0.0015969 0.0011889 -1.343 0.179226
## factor(ageClass)14.5 0.1998069 0.0278528 7.174 7.30e-13 ***
## factor(ageClass)24.5 0.1483125 0.0275053 5.392 6.96e-08 ***
## factor(ageClass)34.5 0.0807354 0.0276216 2.923 0.003468 **
## factor(ageClass)44.5 0.0151329 0.0277212 0.546 0.585136
## factor(ageClass)54.5 0.0430184 0.0278835 1.543 0.122881
## factor(ageClass)64.5 0.1373694 0.0288352 4.764 1.90e-06 ***
## factor(ageClass)74.5 -0.2653767 0.0331259 -8.011 1.14e-15 ***
## factor(ageClass)84.5 -0.3692165 0.0366755 -10.067 < 2e-16 ***
## factor(ageClass)94.5 -0.2640608 0.0448665 -5.885 3.97e-09 ***
## time:factor(ageClass)14.5 -0.0078776 0.0013693 -5.753 8.77e-09 ***
## time:factor(ageClass)24.5 -0.0007156 0.0013482 -0.531 0.595583
## time:factor(ageClass)34.5 -0.0001422 0.0013541 -0.105 0.916380
## time:factor(ageClass)44.5 0.0008708 0.0013602 0.640 0.522018
## time:factor(ageClass)54.5 0.0025138 0.0013698 1.835 0.066483 .
## time:factor(ageClass)64.5 0.0012627 0.0014225 0.888 0.374723
## time:factor(ageClass)74.5 0.0117418 0.0016390 7.164 7.83e-13 ***
## time:factor(ageClass)84.5 0.0138664 0.0018523 7.486 7.09e-14 ***
## time:factor(ageClass)94.5 0.0080562 0.0024198 3.329 0.000871 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 2102.6 on 329 degrees of freedom
## Residual deviance: 826.4 on 310 degrees of freedom
## AIC: 3446.9
##
## Number of Fisher Scoring iterations: 3# Without interaction
mdl1.narm <- glm(cbind(V23, notV23.narm) ~ time + factor(ageClass), data = dat.France.ages, family = "binomial")
summary(mdl1.narm)##
## Call:
## glm(formula = cbind(V23, notV23.narm) ~ time + factor(ageClass),
## family = "binomial", data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -5.1271 -1.3521 -0.0735 1.2504 5.5827
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -2.9165972 0.0122631 -237.835 < 2e-16 ***
## time -0.0010500 0.0002556 -4.108 3.99e-05 ***
## factor(ageClass)14.5 0.0642214 0.0130598 4.918 8.77e-07 ***
## factor(ageClass)24.5 0.1365776 0.0128296 10.646 < 2e-16 ***
## factor(ageClass)34.5 0.0789190 0.0129164 6.110 9.96e-10 ***
## factor(ageClass)44.5 0.0306796 0.0129713 2.365 0.018 *
## factor(ageClass)54.5 0.0864052 0.0130528 6.620 3.60e-11 ***
## factor(ageClass)64.5 0.1595007 0.0135440 11.777 < 2e-16 ***
## factor(ageClass)74.5 -0.0660754 0.0155317 -4.254 2.10e-05 ***
## factor(ageClass)84.5 -0.1452327 0.0177514 -8.181 2.80e-16 ***
## factor(ageClass)94.5 -0.1445022 0.0235242 -6.143 8.11e-10 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 2102.6 on 329 degrees of freedom
## Residual deviance: 1194.1 on 319 degrees of freedom
## AIC: 3796.6
##
## Number of Fisher Scoring iterations: 4## Likelihood ratio test
anova(mdl1.narm, mdl0.narm, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V23, notV23.narm) ~ time + factor(ageClass)
## Model 2: cbind(V23, notV23.narm) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 319 1194.1
## 2 310 826.4 9 367.7 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1Conclusion : the change in frequency of the variant varies across age classes, different slopes for different ages. Faster for youngest (0-10) and for oldest (70+). Initially lower frequency for old people, but steeper slope: Older ones catch back younger ones.
- Age as quantitative
# Test date effect
mdl2.narm <- glm(cbind(V23, notV23.narm) ~ time * ageClass, data = dat.France.ages, family = "binomial")
summary(mdl2.narm)##
## Call:
## glm(formula = cbind(V23, notV23.narm) ~ time * ageClass, family = "binomial",
## data = dat.France.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -4.7548 -1.9676 -0.6058 1.0102 5.7314
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -2.664e+00 1.056e-02 -252.18 <2e-16 ***
## time -9.205e-03 5.391e-04 -17.07 <2e-16 ***
## ageClass -4.588e-03 2.263e-04 -20.27 <2e-16 ***
## time:ageClass 2.017e-04 1.165e-05 17.32 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 2102.6 on 329 degrees of freedom
## Residual deviance: 1677.7 on 326 degrees of freedom
## AIC: 4266.2
##
## Number of Fisher Scoring iterations: 4## Likelihood ratio test
anova(mdl2.narm, mdl0.narm, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V23, notV23.narm) ~ time * ageClass
## Model 2: cbind(V23, notV23.narm) ~ time * factor(ageClass)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 326 1677.7
## 2 310 826.4 16 851.3 < 2.2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1Multinomial
Prepare plots for distribution of variants
par(mfrow = c(1, 1))
getVec <- function(dataset, prop = TRUE){
if(prop){
nn <- 1
}else{
nn <- dataset$Nb_tests_POS / 7 # Divide by 7 to have average over the week instead of sum
}
x <- dataset$date2
cA <- dataset$Prc_susp_ABS/100 * nn
cB <- cA + dataset$Prc_susp_IND/100 * nn
cC <- cB + dataset$Prc_susp_501Y_V2_3/100 * nn
cD <- cC + dataset$Prc_susp_501Y_V1/100 * nn
list(x = x, cA = cA, cB = cB, cC = cC, cD = cD)
}
colV <- c(brewer.pal(3, "Set2"), gray(0.5))
colV <- colV[c(3, 4, 2, 1)]
plotDist <- function(x, cA, cB, cC, cD){
# if(max(cD, na.rm = TRUE) <= 1.1 | max(cD, na.rm = TRUE) >= 99 | max(cA, na.rm = TRUE) >= 99){
# yl <- "Proportions variants"
# }else{
yl <- "Number cases"
# }
plot(x, cA, ylim = c(0, max(cD, na.rm = TRUE)), type = "l",
xlab = "date", ylab = yl, axes = FALSE)
axis(1, pos = 0, labels = format(x, "%b-%d"), at = x)
axis(2, pos = x[1])
polygon(c(x, rev(x)), c(rep(0, length(x)), rev(cA)), col = colV[1], border = NULL)
polygon(c(x, rev(x)), c(cA, rev(cB)), col = colV[2], border = NULL)
polygon(c(x, rev(x)), c(cB, rev(cC)), col = colV[3], border = NULL)
polygon(c(x, rev(x)), c(cC, rev(cD)), col = colV[4], border = NULL)
nend <- length(x)-1
text(x = rep(x[nend], 4), y = c(cA[nend]/2, cA[nend] + (cB[nend] - cA[nend])/2, cB[nend] + (cC[nend] - cB[nend])/2, cC[nend] + (cD[nend] - cC[nend])/2), labels = c("WT", "indet.", "V2/V3", "V1"), col = "white", adj = 1)
}Frequencies
cc <- getVec(dat.France.0, prop = TRUE)
plotDist(cc$x, cc$cA, cc$cB, cc$cC, cc$cD)
Densities
cc <- getVec(dat.France.0, prop = FALSE)
plotDist(cc$x, cc$cA, cc$cB, cc$cC, cc$cD)
mat <- as.matrix(data.frame(WT = dat.France.ages$Nb_susp_ABS,
V1 = dat.France.ages$Nb_susp_501Y_V1,
V2 = dat.France.ages$Nb_susp_501Y_V2_3,
INDET = dat.France.ages$Nb_susp_IND))
library(nnet)
## Null model
m0 <- multinom(mat ~ 1)## # weights: 8 (3 variable)
## initial value 5065978.458966
## iter 10 value 3559479.387870
## iter 10 value 3559479.382851
## final value 3559475.764500
## convergedsummary(m0)## Call:
## multinom(formula = mat ~ 1)
##
## Coefficients:
## (Intercept)
## V1 1.0980281
## V2 -1.4839108
## INDET -0.8980916
##
## Std. Errors:
## (Intercept)
## V1 0.001300162
## V2 0.002618795
## INDET 0.002092739
##
## Residual Deviance: 7118952
## AIC: 7118958## Compute by hand to check result
log(colSums(mat)[2]/colSums(mat)[1])## V1
## 1.097924log(colSums(mat)[3]/colSums(mat)[1])## V2
## -1.483792log(colSums(mat)[4]/colSums(mat)[1])## INDET
## -0.897997## Time effect
m1 <- multinom(mat ~ time, data=dat.France.ages)## # weights: 12 (6 variable)
## initial value 5065978.458966
## iter 10 value 3464108.650568
## final value 3448968.493950
## convergedsummary(m1)## Call:
## multinom(formula = mat ~ time, data = dat.France.ages)
##
## Coefficients:
## (Intercept) time
## V1 0.06050307 0.06608090
## V2 -2.22297838 0.04923290
## INDET -1.66828483 0.05117362
##
## Std. Errors:
## (Intercept) time
## V1 0.002483608 0.0001458336
## V2 0.005299699 0.0002813017
## INDET 0.004193554 0.0002261579
##
## Residual Deviance: 6897937
## AIC: 6897949## Likelihood ratio test
anova(m0, m1, test="Chisq")## Model Resid. df Resid. Dev Test Df LR stat. Pr(Chi)
## 1 1 987 7118952 NA NA NA
## 2 time 984 6897937 1 vs 2 3 221014.5 0## Age effect
m2 <- multinom(mat ~ time + stdage, data=dat.France.ages)## # weights: 16 (9 variable)
## initial value 5065978.458966
## iter 10 value 3722355.510200
## final value 3446697.350209
## convergedsummary(m2)## Call:
## multinom(formula = mat ~ time + stdage, data = dat.France.ages)
##
## Coefficients:
## (Intercept) time stdage
## V1 0.02728941 0.06602440 -0.03934552
## V2 -2.23762402 0.04876853 -0.03001104
## INDET -1.71056236 0.05101108 -0.05108537
##
## Std. Errors:
## (Intercept) time stdage
## V1 0.002540041 0.0001461461 0.0006595229
## V2 0.005379188 0.0002812756 0.0012176883
## INDET 0.004273000 0.0002263457 0.0009434981
##
## Residual Deviance: 6893395
## AIC: 6893413## Likelihood ratio test
anova(m1, m2, test="Chisq")## Model Resid. df Resid. Dev Test Df LR stat. Pr(Chi)
## 1 time 984 6897937 NA NA NA
## 2 time + stdage 981 6893395 1 vs 2 3 4542.287 0## Age effect
m3 <- multinom(mat ~ time * stdage, data=dat.France.ages)## # weights: 20 (12 variable)
## initial value 5065978.458966
## iter 10 value 3517226.508043
## iter 20 value 3446366.386288
## iter 20 value 3446366.362835
## iter 20 value 3446366.362736
## final value 3446366.362736
## convergedsummary(m3)## Call:
## multinom(formula = mat ~ time * stdage, data = dat.France.ages)
##
## Coefficients:
## (Intercept) time stdage time:stdage
## V1 0.01202235 0.06684817 -0.05779589 0.0011469422
## V2 -2.25156200 0.04971883 -0.04904322 0.0013373663
## INDET -1.69098552 0.04980168 -0.03621440 -0.0006382814
##
## Std. Errors:
## (Intercept) time stdage time:stdage
## V1 0.002694321 0.0001591214 0.001231328 6.916949e-05
## V2 0.005744261 0.0003069256 0.002472592 1.282858e-04
## INDET 0.004556011 0.0002477321 0.001969124 1.003894e-04
##
## Residual Deviance: 6892733
## AIC: 6892757## Likelihood ratio test
anova(m2, m3, test="Chisq")## Model Resid. df Resid. Dev Test Df LR stat. Pr(Chi)
## 1 time + stdage 981 6893395 NA NA NA
## 2 time * stdage 978 6892733 1 vs 2 3 661.9749 0Pb in the data is the change in the age structure of positive individuals; to really test the effet, we would need information on the negative tests as well, and the age distribution in these negative tests.
tapply(dat.France.ages$Nb_tests_PCR_TA_crible, list(dat.France.ages$cl_age90, dat.France.ages$time), sum)## 0 1 2 3 4 5 6 7 8 9 10 11
## 9 3577 3828 3925 3954 4023 4111 4254 4353 4500 4522 4509 4543
## 19 10520 11470 11873 11937 12483 12878 13200 13516 13708 13738 13781 13926
## 29 11724 12964 13391 13514 14374 14939 15296 15549 15583 15727 15758 15828
## 39 12338 13366 13837 13887 14552 15079 15323 15574 15646 15618 15680 15771
## 49 12438 13583 14052 14171 14884 15411 15773 15842 15915 16034 16041 16026
## 59 11201 12338 12827 12921 13737 14265 14607 14918 14996 15005 15006 14892
## 69 8044 8823 9084 9151 9634 9988 10312 10555 10598 10728 10731 10816
## 79 5178 5625 5848 5922 6114 6428 6603 6674 6727 6741 6715 6739
## 89 4332 4650 4752 4818 4835 4818 4802 4693 4635 4611 4595 4431
## 90 2418 2508 2558 2588 2542 2501 2391 2308 2229 2211 2199 2015
## 12 13 14 15 16 17 18 19 20 21 22 23
## 9 4592 4580 4666 4749 4783 4813 5022 5257 5556 5875 6263 6520
## 19 13953 14042 14070 14227 14365 14379 14714 15228 15678 16299 17022 17396
## 29 15972 16025 16169 16282 16344 16317 16673 16882 17346 18016 18719 19011
## 39 15657 15704 15590 15631 15790 15765 15963 16130 16498 17135 17760 18136
## 49 15854 15722 15733 15568 15564 15563 15880 16181 16692 17218 17921 18262
## 59 14757 14590 14386 14318 14350 14350 14499 14647 14996 15501 15864 16177
## 69 10797 10669 10582 10553 10518 10484 10409 10613 10766 10993 11258 11411
## 79 6617 6518 6429 6416 6455 6447 6468 6434 6489 6635 6697 6770
## 89 4338 4172 4088 4011 3998 3990 3933 3955 4061 4104 4178 4221
## 90 1900 1801 1706 1680 1673 1656 1616 1543 1560 1562 1577 1585
## 24 25 26 27 28 29 30 31 32
## 9 6565 7066 7466 7713 8056 8301 8333 8315 8194
## 19 17495 18346 19074 19712 20167 20434 20520 20461 20044
## 29 19148 19868 20548 21066 21100 21022 20795 20669 19622
## 39 18326 19291 19993 20600 20915 21105 21013 20899 19988
## 49 18422 19178 19842 20407 20588 20646 20670 20567 19868
## 59 16294 16985 17508 17931 18160 18236 18065 17984 17246
## 69 11471 11985 12245 12557 12944 12974 12987 12951 12470
## 79 6845 7052 7120 7191 7229 7237 7178 7141 6746
## 89 4207 4366 4331 4337 4335 4276 4207 4185 3889
## 90 1586 1664 1678 1700 1726 1719 1692 1674 1568Données régions
Load data
URL <- "https://www.data.gouv.fr/fr/datasets/r/73e8851a-d851-43f8-89e4-6178b35b7127"
dataFile <- paste0("data/Regions_", today, ".csv") # name file with today's date
download.file(URL, dataFile) # download file from repo
dat.regions <- read.csv(dataFile, sep = ";", stringsAsFactors = FALSE)
# Format date
dat.regions$date1 <- as.Date(substring(dat.regions$semaine, 1, 10))
dat.regions$date2 <- as.Date(substring(dat.regions$semaine, 12, 21))
# Rewrite time as days since beginning of the data
dat.regions$time <- dat.regions$date2 - min(dat.regions$date2)
# Compute data on total tests
dat.regions$Nb_tests_POS <- dat.regions$Nb_tests_PCR_TA_crible / (dat.regions$Prc_tests_PCR_TA_crible / 100)# Codes regions
URL <- "https://www.data.gouv.fr/en/datasets/r/34fc7b52-ef11-4ab0-bc16-e1aae5c942e7"
dataFile <- "data/coderegions.csv"
download.file(URL, dataFile)
codesRegions <- read.csv(dataFile, sep = ",", stringsAsFactors = FALSE)
# Turn into dictionary
regs <- codesRegions$nom_region
names(regs) <- as.character(codesRegions$code_region)# Add region name
dat.regions$reg_name <- regs[as.character(dat.regions$reg)]
# dat.regions[floor(runif(10)*1000), c("reg", "reg_name")] # check a few names
# What are the other regions??
# aggregate(dat.regions$reg, by = list(dat.regions$reg), FUN = length)Format data further
dat.regions.ages <- dat.regions[dat.regions$cl_age90 != 0,]
# Add new age class code -- median of the age class
dat.regions.ages$ageClass <- dic.age[as.character(dat.regions.ages$cl_age90)]
# Standardize age class values
dat.regions.ages$stdage <- (dat.regions.ages$ageClass - mean(dat.regions.ages$ageClass))/dat.regions.ages$ageClassV1
Plot
tmp <- unique(dat.regions$reg) # Region codes
tmp <- tmp[tmp>10 & tmp <= 93] # Choose only metropolitan regions
par(mfrow = c(4, 3))
for(region in tmp){
subdat <- dat.regions[dat.regions$reg == region, ]
plot(subdat$date2, subdat$Prc_susp_501Y_V1, ylim = c(0, 100), main = regs[as.character(region)], col = colsAge[as.character(subdat$cl_age90)], pch = pchAge[as.character(subdat$cl_age90)],
xlab = "date", ylab = "Proportion V1"
)
}
Test
# Create new colums with information on number of specific PCR tests
# PCR with V1 result
dat.regions.ages$V1 <- dat.regions.ages$Nb_susp_501Y_V1
# All other PCRs (considering NAs are non-V1)
dat.regions.ages$notV1 <- dat.regions.ages$Nb_tests_PCR_TA_crible - dat.regions.ages$Nb_susp_501Y_V1
# All other PCRs with a result (removing NAs)
dat.regions.ages$notV1.narm <- dat.regions.ages$Nb_susp_501Y_V2_3 + dat.regions.ages$Nb_susp_ABS
# Check that columns currently sum
all(dat.regions.ages$Nb_susp_501Y_V2_3 + dat.regions.ages$Nb_susp_ABS + dat.regions.ages$Nb_susp_501Y_V1 + dat.regions.ages$Nb_susp_IND - dat.regions.ages$Nb_tests_PCR_TA_crible == 0)## [1] TRUEdat.regions.ages$reg_name.fac <- as.factor(dat.regions.ages$reg_name)GLM, assume that all indeterminate PCRs are non-V1
- Age as factor, compare models without and with interaction between age and time
# GLM
# Assuming that all IND (indetermine) are non-V1
mdl0 <- glm(cbind(V1, notV1) ~ time * factor(ageClass) * factor(reg_name), data = dat.regions.ages, family = "binomial")## Warning: glm.fit: algorithm did not converge## Warning: glm.fit: fitted probabilities numerically 0 or 1 occurredsummary(mdl0)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time * factor(ageClass) * factor(reg_name),
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -301.90 -26.12 11.46 133.33 597.88
##
## Coefficients: (4 not defined because of singularities)
## Estimate
## (Intercept) -2.351e+15
## time 4.596e+13
## factor(ageClass)14.5 5.745e+15
## factor(ageClass)24.5 4.207e+15
## factor(ageClass)34.5 -2.196e+14
## factor(ageClass)44.5 4.038e+15
## factor(ageClass)54.5 4.078e+15
## factor(ageClass)64.5 4.795e+14
## factor(ageClass)74.5 -1.393e+15
## factor(ageClass)84.5 -2.098e+14
## factor(ageClass)94.5 -2.105e+15
## factor(reg_name)Bourgogne-Franche-Comté 3.863e+15
## factor(reg_name)Bretagne 7.066e+14
## factor(reg_name)Centre-Val de Loire 2.992e+14
## factor(reg_name)Corse 6.077e+15
## factor(reg_name)Grand Est -6.952e+14
## factor(reg_name)Guadeloupe 4.420e+15
## factor(reg_name)Guyane -1.221e+15
## factor(reg_name)Hauts-de-France 5.463e+14
## factor(reg_name)ÃŽle-de-France 5.917e+14
## factor(reg_name)La Réunion -1.957e+15
## factor(reg_name)Martinique -2.990e+15
## factor(reg_name)Mayotte 2.848e+15
## factor(reg_name)Normandie -1.155e+14
## factor(reg_name)Nouvelle-Aquitaine 6.828e+13
## factor(reg_name)Occitanie 5.172e+14
## factor(reg_name)Pays de la Loire -2.000e+14
## factor(reg_name)Provence-Alpes-Côte d'Azur 6.174e+14
## time:factor(ageClass)14.5 -1.362e+14
## time:factor(ageClass)24.5 1.504e+13
## time:factor(ageClass)34.5 1.138e+13
## time:factor(ageClass)44.5 -1.573e+14
## time:factor(ageClass)54.5 1.941e+13
## time:factor(ageClass)64.5 1.638e+14
## time:factor(ageClass)74.5 8.988e+13
## time:factor(ageClass)84.5 6.573e+13
## time:factor(ageClass)94.5 1.180e+14
## time:factor(reg_name)Bourgogne-Franche-Comté 1.842e+12
## time:factor(reg_name)Bretagne -2.303e+13
## time:factor(reg_name)Centre-Val de Loire -1.626e+13
## time:factor(reg_name)Corse -6.271e+13
## time:factor(reg_name)Grand Est -5.481e+12
## time:factor(reg_name)Guadeloupe 5.904e+13
## time:factor(reg_name)Guyane 6.057e+13
## time:factor(reg_name)Hauts-de-France -2.103e+13
## time:factor(reg_name)ÃŽle-de-France -1.869e+13
## time:factor(reg_name)La Réunion -3.358e+13
## time:factor(reg_name)Martinique 2.750e+14
## time:factor(reg_name)Mayotte 1.578e+14
## time:factor(reg_name)Normandie 1.410e+12
## time:factor(reg_name)Nouvelle-Aquitaine 3.090e+12
## time:factor(reg_name)Occitanie -2.609e+13
## time:factor(reg_name)Pays de la Loire -6.460e+11
## time:factor(reg_name)Provence-Alpes-Côte d'Azur -1.306e+13
## factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté -5.904e+15
## factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté -4.392e+15
## factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté 2.736e+13
## factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté -4.340e+15
## factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté -4.463e+15
## factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté -9.215e+14
## factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté 9.181e+14
## factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté -5.907e+14
## factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté 1.215e+15
## factor(ageClass)14.5:factor(reg_name)Bretagne -6.017e+15
## factor(ageClass)24.5:factor(reg_name)Bretagne -4.424e+15
## factor(ageClass)34.5:factor(reg_name)Bretagne -1.905e+14
## factor(ageClass)44.5:factor(reg_name)Bretagne -4.227e+15
## factor(ageClass)54.5:factor(reg_name)Bretagne 1.351e+14
## factor(ageClass)64.5:factor(reg_name)Bretagne -1.123e+15
## factor(ageClass)74.5:factor(reg_name)Bretagne 8.671e+14
## factor(ageClass)84.5:factor(reg_name)Bretagne -6.029e+14
## factor(ageClass)94.5:factor(reg_name)Bretagne 1.152e+15
## factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire -1.472e+15
## factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire -2.920e+14
## factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire -1.847e+14
## factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire 5.070e+13
## factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire -6.606e+13
## factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire 2.931e+15
## factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire 6.795e+14
## factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire -1.038e+15
## factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire 5.682e+14
## factor(ageClass)14.5:factor(reg_name)Corse -6.821e+15
## factor(ageClass)24.5:factor(reg_name)Corse -4.964e+15
## factor(ageClass)34.5:factor(reg_name)Corse -6.679e+14
## factor(ageClass)44.5:factor(reg_name)Corse -4.906e+15
## factor(ageClass)54.5:factor(reg_name)Corse -4.609e+15
## factor(ageClass)64.5:factor(reg_name)Corse -9.593e+14
## factor(ageClass)74.5:factor(reg_name)Corse 6.566e+14
## factor(ageClass)84.5:factor(reg_name)Corse -7.471e+14
## factor(ageClass)94.5:factor(reg_name)Corse 3.097e+15
## factor(ageClass)14.5:factor(reg_name)Grand Est -1.442e+15
## factor(ageClass)24.5:factor(reg_name)Grand Est 2.860e+14
## factor(ageClass)34.5:factor(reg_name)Grand Est 1.770e+14
## factor(ageClass)44.5:factor(reg_name)Grand Est 4.494e+14
## factor(ageClass)54.5:factor(reg_name)Grand Est 2.831e+14
## factor(ageClass)64.5:factor(reg_name)Grand Est 3.980e+15
## factor(ageClass)74.5:factor(reg_name)Grand Est 9.642e+14
## factor(ageClass)84.5:factor(reg_name)Grand Est -4.183e+14
## factor(ageClass)94.5:factor(reg_name)Grand Est 1.398e+15
## factor(ageClass)14.5:factor(reg_name)Guadeloupe -4.081e+15
## factor(ageClass)24.5:factor(reg_name)Guadeloupe -2.344e+15
## factor(ageClass)34.5:factor(reg_name)Guadeloupe 5.223e+14
## factor(ageClass)44.5:factor(reg_name)Guadeloupe -2.428e+15
## factor(ageClass)54.5:factor(reg_name)Guadeloupe -3.087e+15
## factor(ageClass)64.5:factor(reg_name)Guadeloupe 7.219e+14
## factor(ageClass)74.5:factor(reg_name)Guadeloupe 1.808e+15
## factor(ageClass)84.5:factor(reg_name)Guadeloupe 2.644e+15
## factor(ageClass)94.5:factor(reg_name)Guadeloupe -7.896e+15
## factor(ageClass)14.5:factor(reg_name)Guyane -2.377e+15
## factor(ageClass)24.5:factor(reg_name)Guyane -8.105e+12
## factor(ageClass)34.5:factor(reg_name)Guyane 5.394e+15
## factor(ageClass)44.5:factor(reg_name)Guyane -1.293e+15
## factor(ageClass)54.5:factor(reg_name)Guyane 8.801e+14
## factor(ageClass)64.5:factor(reg_name)Guyane 2.668e+15
## factor(ageClass)74.5:factor(reg_name)Guyane -3.286e+16
## factor(ageClass)84.5:factor(reg_name)Guyane 2.495e+15
## factor(ageClass)94.5:factor(reg_name)Guyane NA
## factor(ageClass)14.5:factor(reg_name)Hauts-de-France -5.805e+15
## factor(ageClass)24.5:factor(reg_name)Hauts-de-France 1.840e+14
## factor(ageClass)34.5:factor(reg_name)Hauts-de-France 1.078e+14
## factor(ageClass)44.5:factor(reg_name)Hauts-de-France -4.166e+15
## factor(ageClass)54.5:factor(reg_name)Hauts-de-France 2.603e+14
## factor(ageClass)64.5:factor(reg_name)Hauts-de-France -7.964e+14
## factor(ageClass)74.5:factor(reg_name)Hauts-de-France 9.404e+14
## factor(ageClass)84.5:factor(reg_name)Hauts-de-France -6.103e+14
## factor(ageClass)94.5:factor(reg_name)Hauts-de-France 1.272e+15
## factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France -5.819e+15
## factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France -4.417e+15
## factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France 1.120e+14
## factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France -4.119e+15
## factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France 2.068e+14
## factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France -7.387e+14
## factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France 8.141e+14
## factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France -1.003e+15
## factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France 7.786e+14
## factor(ageClass)14.5:factor(reg_name)La Réunion -5.667e+15
## factor(ageClass)24.5:factor(reg_name)La Réunion -4.332e+15
## factor(ageClass)34.5:factor(reg_name)La Réunion 5.178e+15
## factor(ageClass)44.5:factor(reg_name)La Réunion -4.016e+15
## factor(ageClass)54.5:factor(reg_name)La Réunion 7.757e+14
## factor(ageClass)64.5:factor(reg_name)La Réunion 1.080e+14
## factor(ageClass)74.5:factor(reg_name)La Réunion 1.196e+15
## factor(ageClass)84.5:factor(reg_name)La Réunion -2.069e+14
## factor(ageClass)94.5:factor(reg_name)La Réunion -7.552e+15
## factor(ageClass)14.5:factor(reg_name)Martinique -1.072e+14
## factor(ageClass)24.5:factor(reg_name)Martinique -9.075e+13
## factor(ageClass)34.5:factor(reg_name)Martinique 3.447e+15
## factor(ageClass)44.5:factor(reg_name)Martinique -9.513e+14
## factor(ageClass)54.5:factor(reg_name)Martinique 4.512e+15
## factor(ageClass)64.5:factor(reg_name)Martinique 7.462e+15
## factor(ageClass)74.5:factor(reg_name)Martinique 3.491e+15
## factor(ageClass)84.5:factor(reg_name)Martinique 4.268e+15
## factor(ageClass)94.5:factor(reg_name)Martinique 1.003e+16
## factor(ageClass)14.5:factor(reg_name)Mayotte -7.250e+15
## factor(ageClass)24.5:factor(reg_name)Mayotte -7.143e+15
## factor(ageClass)34.5:factor(reg_name)Mayotte -4.963e+15
## factor(ageClass)44.5:factor(reg_name)Mayotte -9.038e+15
## factor(ageClass)54.5:factor(reg_name)Mayotte -9.915e+15
## factor(ageClass)64.5:factor(reg_name)Mayotte -6.459e+15
## factor(ageClass)74.5:factor(reg_name)Mayotte -4.141e+15
## factor(ageClass)84.5:factor(reg_name)Mayotte -4.790e+15
## factor(ageClass)94.5:factor(reg_name)Mayotte NA
## factor(ageClass)14.5:factor(reg_name)Normandie -3.053e+15
## factor(ageClass)24.5:factor(reg_name)Normandie 2.564e+14
## factor(ageClass)34.5:factor(reg_name)Normandie 4.427e+13
## factor(ageClass)44.5:factor(reg_name)Normandie -3.901e+15
## factor(ageClass)54.5:factor(reg_name)Normandie 3.584e+14
## factor(ageClass)64.5:factor(reg_name)Normandie -8.445e+14
## factor(ageClass)74.5:factor(reg_name)Normandie 9.467e+14
## factor(ageClass)84.5:factor(reg_name)Normandie -4.524e+14
## factor(ageClass)94.5:factor(reg_name)Normandie 1.154e+15
## factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine -2.992e+15
## factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine 5.193e+13
## factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine -2.469e+14
## factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine -4.264e+15
## factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine -1.003e+14
## factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine -1.922e+14
## factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine 3.641e+14
## factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine -9.785e+14
## factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine 3.034e+14
## factor(ageClass)14.5:factor(reg_name)Occitanie -7.897e+14
## factor(ageClass)24.5:factor(reg_name)Occitanie -3.371e+13
## factor(ageClass)34.5:factor(reg_name)Occitanie 2.148e+13
## factor(ageClass)44.5:factor(reg_name)Occitanie -4.376e+15
## factor(ageClass)54.5:factor(reg_name)Occitanie -1.099e+14
## factor(ageClass)64.5:factor(reg_name)Occitanie -1.186e+15
## factor(ageClass)74.5:factor(reg_name)Occitanie 5.346e+14
## factor(ageClass)84.5:factor(reg_name)Occitanie -8.160e+14
## factor(ageClass)94.5:factor(reg_name)Occitanie 8.464e+14
## factor(ageClass)14.5:factor(reg_name)Pays de la Loire -5.774e+15
## factor(ageClass)24.5:factor(reg_name)Pays de la Loire 2.020e+14
## factor(ageClass)34.5:factor(reg_name)Pays de la Loire 1.262e+14
## factor(ageClass)44.5:factor(reg_name)Pays de la Loire -4.061e+15
## factor(ageClass)54.5:factor(reg_name)Pays de la Loire 3.595e+14
## factor(ageClass)64.5:factor(reg_name)Pays de la Loire -7.696e+14
## factor(ageClass)74.5:factor(reg_name)Pays de la Loire 1.033e+15
## factor(ageClass)84.5:factor(reg_name)Pays de la Loire -2.905e+14
## factor(ageClass)94.5:factor(reg_name)Pays de la Loire 1.155e+15
## factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur -6.871e+15
## factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur -5.073e+13
## factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur -4.049e+13
## factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur -4.384e+15
## factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur 7.430e+13
## factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur -8.629e+14
## factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur 3.361e+14
## factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur -1.009e+15
## factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur 5.952e+14
## time:factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté 1.606e+14
## time:factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté 7.277e+12
## time:factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté 1.216e+13
## time:factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté 1.886e+14
## time:factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté 1.151e+13
## time:factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté -1.363e+14
## time:factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté -6.732e+13
## time:factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté -5.453e+13
## time:factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté -1.011e+14
## time:factor(ageClass)14.5:factor(reg_name)Bretagne 1.542e+14
## time:factor(ageClass)24.5:factor(reg_name)Bretagne -3.397e+11
## time:factor(ageClass)34.5:factor(reg_name)Bretagne 1.019e+13
## time:factor(ageClass)44.5:factor(reg_name)Bretagne 1.719e+14
## time:factor(ageClass)54.5:factor(reg_name)Bretagne -5.184e+11
## time:factor(ageClass)64.5:factor(reg_name)Bretagne -1.357e+14
## time:factor(ageClass)74.5:factor(reg_name)Bretagne -6.970e+13
## time:factor(ageClass)84.5:factor(reg_name)Bretagne -4.206e+13
## time:factor(ageClass)94.5:factor(reg_name)Bretagne -8.362e+13
## time:factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire 1.482e+14
## time:factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire 1.222e+13
## time:factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire 5.797e+12
## time:factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire 1.782e+14
## time:factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire 7.175e+11
## time:factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire -1.211e+14
## time:factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire -6.918e+13
## time:factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire -2.762e+13
## time:factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire -7.428e+13
## time:factor(ageClass)14.5:factor(reg_name)Corse 1.902e+14
## time:factor(ageClass)24.5:factor(reg_name)Corse 3.225e+13
## time:factor(ageClass)34.5:factor(reg_name)Corse 4.276e+13
## time:factor(ageClass)44.5:factor(reg_name)Corse 2.034e+14
## time:factor(ageClass)54.5:factor(reg_name)Corse 1.086e+13
## time:factor(ageClass)64.5:factor(reg_name)Corse -1.284e+14
## time:factor(ageClass)74.5:factor(reg_name)Corse -5.128e+13
## time:factor(ageClass)84.5:factor(reg_name)Corse -3.379e+13
## time:factor(ageClass)94.5:factor(reg_name)Corse -1.622e+14
## time:factor(ageClass)14.5:factor(reg_name)Grand Est 1.536e+14
## time:factor(ageClass)24.5:factor(reg_name)Grand Est 1.016e+11
## time:factor(ageClass)34.5:factor(reg_name)Grand Est -1.315e+12
## time:factor(ageClass)44.5:factor(reg_name)Grand Est 1.665e+14
## time:factor(ageClass)54.5:factor(reg_name)Grand Est -9.895e+12
## time:factor(ageClass)64.5:factor(reg_name)Grand Est -1.589e+14
## time:factor(ageClass)74.5:factor(reg_name)Grand Est -7.279e+13
## time:factor(ageClass)84.5:factor(reg_name)Grand Est -4.364e+13
## time:factor(ageClass)94.5:factor(reg_name)Grand Est -1.042e+14
## time:factor(ageClass)14.5:factor(reg_name)Guadeloupe 4.791e+13
## time:factor(ageClass)24.5:factor(reg_name)Guadeloupe -1.015e+14
## time:factor(ageClass)34.5:factor(reg_name)Guadeloupe -3.646e+13
## time:factor(ageClass)44.5:factor(reg_name)Guadeloupe 7.471e+13
## time:factor(ageClass)54.5:factor(reg_name)Guadeloupe -7.562e+13
## time:factor(ageClass)64.5:factor(reg_name)Guadeloupe -2.393e+14
## time:factor(ageClass)74.5:factor(reg_name)Guadeloupe -1.274e+14
## time:factor(ageClass)84.5:factor(reg_name)Guadeloupe -2.056e+14
## time:factor(ageClass)94.5:factor(reg_name)Guadeloupe 1.883e+14
## time:factor(ageClass)14.5:factor(reg_name)Guyane 4.989e+13
## time:factor(ageClass)24.5:factor(reg_name)Guyane -1.289e+13
## time:factor(ageClass)34.5:factor(reg_name)Guyane -1.412e+14
## time:factor(ageClass)44.5:factor(reg_name)Guyane 1.217e+14
## time:factor(ageClass)54.5:factor(reg_name)Guyane -1.264e+14
## time:factor(ageClass)64.5:factor(reg_name)Guyane -3.654e+14
## time:factor(ageClass)74.5:factor(reg_name)Guyane 1.155e+15
## time:factor(ageClass)84.5:factor(reg_name)Guyane -5.583e+14
## time:factor(ageClass)94.5:factor(reg_name)Guyane NA
## time:factor(ageClass)14.5:factor(reg_name)Hauts-de-France 1.437e+14
## time:factor(ageClass)24.5:factor(reg_name)Hauts-de-France -6.479e+12
## time:factor(ageClass)34.5:factor(reg_name)Hauts-de-France -3.824e+11
## time:factor(ageClass)44.5:factor(reg_name)Hauts-de-France 1.680e+14
## time:factor(ageClass)54.5:factor(reg_name)Hauts-de-France -7.745e+12
## time:factor(ageClass)64.5:factor(reg_name)Hauts-de-France -1.484e+14
## time:factor(ageClass)74.5:factor(reg_name)Hauts-de-France -7.576e+13
## time:factor(ageClass)84.5:factor(reg_name)Hauts-de-France -4.565e+13
## time:factor(ageClass)94.5:factor(reg_name)Hauts-de-France -9.810e+13
## time:factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France 1.390e+14
## time:factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France -9.317e+12
## time:factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France -8.431e+12
## time:factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France 1.597e+14
## time:factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France -1.342e+13
## time:factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France -1.583e+14
## time:factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France -7.252e+13
## time:factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France -2.821e+13
## time:factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France -7.656e+13
## time:factor(ageClass)14.5:factor(reg_name)La Réunion 1.300e+14
## time:factor(ageClass)24.5:factor(reg_name)La Réunion -1.366e+13
## time:factor(ageClass)34.5:factor(reg_name)La Réunion -4.672e+13
## time:factor(ageClass)44.5:factor(reg_name)La Réunion 1.584e+14
## time:factor(ageClass)54.5:factor(reg_name)La Réunion -2.205e+14
## time:factor(ageClass)64.5:factor(reg_name)La Réunion -1.973e+14
## time:factor(ageClass)74.5:factor(reg_name)La Réunion -8.771e+13
## time:factor(ageClass)84.5:factor(reg_name)La Réunion -4.716e+13
## time:factor(ageClass)94.5:factor(reg_name)La Réunion 2.887e+14
## time:factor(ageClass)14.5:factor(reg_name)Martinique -6.104e+13
## time:factor(ageClass)24.5:factor(reg_name)Martinique -2.973e+14
## time:factor(ageClass)34.5:factor(reg_name)Martinique -2.702e+14
## time:factor(ageClass)44.5:factor(reg_name)Martinique -9.480e+13
## time:factor(ageClass)54.5:factor(reg_name)Martinique -3.549e+14
## time:factor(ageClass)64.5:factor(reg_name)Martinique -5.998e+14
## time:factor(ageClass)74.5:factor(reg_name)Martinique -3.325e+14
## time:factor(ageClass)84.5:factor(reg_name)Martinique -9.583e+13
## time:factor(ageClass)94.5:factor(reg_name)Martinique -6.298e+14
## time:factor(ageClass)14.5:factor(reg_name)Mayotte -2.392e+14
## time:factor(ageClass)24.5:factor(reg_name)Mayotte -2.594e+14
## time:factor(ageClass)34.5:factor(reg_name)Mayotte -1.682e+14
## time:factor(ageClass)44.5:factor(reg_name)Mayotte -4.641e+13
## time:factor(ageClass)54.5:factor(reg_name)Mayotte -3.567e+13
## time:factor(ageClass)64.5:factor(reg_name)Mayotte -2.212e+14
## time:factor(ageClass)74.5:factor(reg_name)Mayotte -1.385e+14
## time:factor(ageClass)84.5:factor(reg_name)Mayotte -2.694e+14
## time:factor(ageClass)94.5:factor(reg_name)Mayotte NA
## time:factor(ageClass)14.5:factor(reg_name)Normandie 3.237e+13
## time:factor(ageClass)24.5:factor(reg_name)Normandie -2.458e+12
## time:factor(ageClass)34.5:factor(reg_name)Normandie 5.967e+12
## time:factor(ageClass)44.5:factor(reg_name)Normandie 1.626e+14
## time:factor(ageClass)54.5:factor(reg_name)Normandie -1.126e+13
## time:factor(ageClass)64.5:factor(reg_name)Normandie -1.498e+14
## time:factor(ageClass)74.5:factor(reg_name)Normandie -7.931e+13
## time:factor(ageClass)84.5:factor(reg_name)Normandie -4.688e+13
## time:factor(ageClass)94.5:factor(reg_name)Normandie -1.022e+14
## time:factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine 2.195e+13
## time:factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine -9.242e+12
## time:factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine 5.401e+12
## time:factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine 1.651e+14
## time:factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine -6.753e+12
## time:factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine -1.914e+14
## time:factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine -6.706e+13
## time:factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine -5.471e+13
## time:factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine -1.019e+14
## time:factor(ageClass)14.5:factor(reg_name)Occitanie -4.617e+13
## time:factor(ageClass)24.5:factor(reg_name)Occitanie 5.535e+12
## time:factor(ageClass)34.5:factor(reg_name)Occitanie 8.478e+12
## time:factor(ageClass)44.5:factor(reg_name)Occitanie 1.807e+14
## time:factor(ageClass)54.5:factor(reg_name)Occitanie 1.169e+13
## time:factor(ageClass)64.5:factor(reg_name)Occitanie -1.291e+14
## time:factor(ageClass)74.5:factor(reg_name)Occitanie -5.461e+13
## time:factor(ageClass)84.5:factor(reg_name)Occitanie -3.237e+13
## time:factor(ageClass)94.5:factor(reg_name)Occitanie -7.782e+13
## time:factor(ageClass)14.5:factor(reg_name)Pays de la Loire 1.342e+14
## time:factor(ageClass)24.5:factor(reg_name)Pays de la Loire -9.478e+12
## time:factor(ageClass)34.5:factor(reg_name)Pays de la Loire -5.308e+12
## time:factor(ageClass)44.5:factor(reg_name)Pays de la Loire 1.620e+14
## time:factor(ageClass)54.5:factor(reg_name)Pays de la Loire -1.557e+13
## time:factor(ageClass)64.5:factor(reg_name)Pays de la Loire -1.516e+14
## time:factor(ageClass)74.5:factor(reg_name)Pays de la Loire -7.961e+13
## time:factor(ageClass)84.5:factor(reg_name)Pays de la Loire -7.006e+13
## time:factor(ageClass)94.5:factor(reg_name)Pays de la Loire -1.014e+14
## time:factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur 2.374e+14
## time:factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur -8.261e+12
## time:factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur -6.069e+12
## time:factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.692e+14
## time:factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur -8.039e+12
## time:factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur -1.549e+14
## time:factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur -5.486e+13
## time:factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur -2.800e+13
## time:factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur -7.682e+13
## Std. Error
## (Intercept) 9.892e+05
## time 4.835e+04
## factor(ageClass)14.5 1.150e+06
## factor(ageClass)24.5 1.144e+06
## factor(ageClass)34.5 1.138e+06
## factor(ageClass)44.5 1.141e+06
## factor(ageClass)54.5 1.144e+06
## factor(ageClass)64.5 1.216e+06
## factor(ageClass)74.5 1.292e+06
## factor(ageClass)84.5 1.405e+06
## factor(ageClass)94.5 1.748e+06
## factor(reg_name)Bourgogne-Franche-Comté 2.224e+06
## factor(reg_name)Bretagne 2.112e+06
## factor(reg_name)Centre-Val de Loire 2.499e+06
## factor(reg_name)Corse 7.024e+06
## factor(reg_name)Grand Est 1.537e+06
## factor(reg_name)Guadeloupe 2.503e+07
## factor(reg_name)Guyane 2.999e+07
## factor(reg_name)Hauts-de-France 1.286e+06
## factor(reg_name)ÃŽle-de-France 1.210e+06
## factor(reg_name)La Réunion 4.747e+06
## factor(reg_name)Martinique 2.002e+07
## factor(reg_name)Mayotte 1.418e+08
## factor(reg_name)Normandie 2.007e+06
## factor(reg_name)Nouvelle-Aquitaine 1.867e+06
## factor(reg_name)Occitanie 1.698e+06
## factor(reg_name)Pays de la Loire 1.928e+06
## factor(reg_name)Provence-Alpes-Côte d'Azur 1.510e+06
## time:factor(ageClass)14.5 5.626e+04
## time:factor(ageClass)24.5 5.654e+04
## time:factor(ageClass)34.5 5.621e+04
## time:factor(ageClass)44.5 5.625e+04
## time:factor(ageClass)54.5 5.680e+04
## time:factor(ageClass)64.5 6.044e+04
## time:factor(ageClass)74.5 6.575e+04
## time:factor(ageClass)84.5 7.429e+04
## time:factor(ageClass)94.5 1.014e+05
## time:factor(reg_name)Bourgogne-Franche-Comté 1.062e+05
## time:factor(reg_name)Bretagne 1.068e+05
## time:factor(reg_name)Centre-Val de Loire 1.198e+05
## time:factor(reg_name)Corse 3.201e+05
## time:factor(reg_name)Grand Est 7.446e+04
## time:factor(reg_name)Guadeloupe 1.570e+06
## time:factor(reg_name)Guyane 2.182e+06
## time:factor(reg_name)Hauts-de-France 6.232e+04
## time:factor(reg_name)ÃŽle-de-France 5.836e+04
## time:factor(reg_name)La Réunion 2.520e+05
## time:factor(reg_name)Martinique 9.137e+05
## time:factor(reg_name)Mayotte 1.268e+07
## time:factor(reg_name)Normandie 9.752e+04
## time:factor(reg_name)Nouvelle-Aquitaine 8.950e+04
## time:factor(reg_name)Occitanie 8.147e+04
## time:factor(reg_name)Pays de la Loire 9.415e+04
## time:factor(reg_name)Provence-Alpes-Côte d'Azur 7.552e+04
## factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté 2.539e+06
## factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté 2.526e+06
## factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté 2.533e+06
## factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté 2.514e+06
## factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté 2.515e+06
## factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté 2.603e+06
## factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté 2.756e+06
## factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté 2.896e+06
## factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté 3.452e+06
## factor(ageClass)14.5:factor(reg_name)Bretagne 2.448e+06
## factor(ageClass)24.5:factor(reg_name)Bretagne 2.409e+06
## factor(ageClass)34.5:factor(reg_name)Bretagne 2.473e+06
## factor(ageClass)44.5:factor(reg_name)Bretagne 2.442e+06
## factor(ageClass)54.5:factor(reg_name)Bretagne 2.475e+06
## factor(ageClass)64.5:factor(reg_name)Bretagne 2.708e+06
## factor(ageClass)74.5:factor(reg_name)Bretagne 2.963e+06
## factor(ageClass)84.5:factor(reg_name)Bretagne 3.058e+06
## factor(ageClass)94.5:factor(reg_name)Bretagne 3.773e+06
## factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire 2.833e+06
## factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire 2.818e+06
## factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire 2.817e+06
## factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire 2.799e+06
## factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire 2.813e+06
## factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire 2.899e+06
## factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire 3.068e+06
## factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire 3.205e+06
## factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire 3.660e+06
## factor(ageClass)14.5:factor(reg_name)Corse 8.337e+06
## factor(ageClass)24.5:factor(reg_name)Corse 8.032e+06
## factor(ageClass)34.5:factor(reg_name)Corse 7.700e+06
## factor(ageClass)44.5:factor(reg_name)Corse 7.969e+06
## factor(ageClass)54.5:factor(reg_name)Corse 7.796e+06
## factor(ageClass)64.5:factor(reg_name)Corse 7.898e+06
## factor(ageClass)74.5:factor(reg_name)Corse 8.471e+06
## factor(ageClass)84.5:factor(reg_name)Corse 9.343e+06
## factor(ageClass)94.5:factor(reg_name)Corse 1.228e+07
## factor(ageClass)14.5:factor(reg_name)Grand Est 1.788e+06
## factor(ageClass)24.5:factor(reg_name)Grand Est 1.777e+06
## factor(ageClass)34.5:factor(reg_name)Grand Est 1.775e+06
## factor(ageClass)44.5:factor(reg_name)Grand Est 1.783e+06
## factor(ageClass)54.5:factor(reg_name)Grand Est 1.793e+06
## factor(ageClass)64.5:factor(reg_name)Grand Est 1.907e+06
## factor(ageClass)74.5:factor(reg_name)Grand Est 2.043e+06
## factor(ageClass)84.5:factor(reg_name)Grand Est 2.194e+06
## factor(ageClass)94.5:factor(reg_name)Grand Est 2.750e+06
## factor(ageClass)14.5:factor(reg_name)Guadeloupe 2.592e+07
## factor(ageClass)24.5:factor(reg_name)Guadeloupe 2.630e+07
## factor(ageClass)34.5:factor(reg_name)Guadeloupe 2.602e+07
## factor(ageClass)44.5:factor(reg_name)Guadeloupe 2.583e+07
## factor(ageClass)54.5:factor(reg_name)Guadeloupe 2.564e+07
## factor(ageClass)64.5:factor(reg_name)Guadeloupe 2.609e+07
## factor(ageClass)74.5:factor(reg_name)Guadeloupe 3.073e+07
## factor(ageClass)84.5:factor(reg_name)Guadeloupe 3.247e+07
## factor(ageClass)94.5:factor(reg_name)Guadeloupe 1.480e+08
## factor(ageClass)14.5:factor(reg_name)Guyane 3.167e+07
## factor(ageClass)24.5:factor(reg_name)Guyane 3.227e+07
## factor(ageClass)34.5:factor(reg_name)Guyane 3.315e+07
## factor(ageClass)44.5:factor(reg_name)Guyane 3.164e+07
## factor(ageClass)54.5:factor(reg_name)Guyane 3.305e+07
## factor(ageClass)64.5:factor(reg_name)Guyane 3.824e+07
## factor(ageClass)74.5:factor(reg_name)Guyane 6.381e+08
## factor(ageClass)84.5:factor(reg_name)Guyane 5.709e+07
## factor(ageClass)94.5:factor(reg_name)Guyane NA
## factor(ageClass)14.5:factor(reg_name)Hauts-de-France 1.498e+06
## factor(ageClass)24.5:factor(reg_name)Hauts-de-France 1.493e+06
## factor(ageClass)34.5:factor(reg_name)Hauts-de-France 1.483e+06
## factor(ageClass)44.5:factor(reg_name)Hauts-de-France 1.483e+06
## factor(ageClass)54.5:factor(reg_name)Hauts-de-France 1.494e+06
## factor(ageClass)64.5:factor(reg_name)Hauts-de-France 1.587e+06
## factor(ageClass)74.5:factor(reg_name)Hauts-de-France 1.704e+06
## factor(ageClass)84.5:factor(reg_name)Hauts-de-France 1.862e+06
## factor(ageClass)94.5:factor(reg_name)Hauts-de-France 2.390e+06
## factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France 1.410e+06
## factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France 1.389e+06
## factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France 1.383e+06
## factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France 1.387e+06
## factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France 1.398e+06
## factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France 1.480e+06
## factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France 1.616e+06
## factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France 1.771e+06
## factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France 2.269e+06
## factor(ageClass)14.5:factor(reg_name)La Réunion 5.537e+06
## factor(ageClass)24.5:factor(reg_name)La Réunion 5.629e+06
## factor(ageClass)34.5:factor(reg_name)La Réunion 5.484e+06
## factor(ageClass)44.5:factor(reg_name)La Réunion 5.491e+06
## factor(ageClass)54.5:factor(reg_name)La Réunion 5.541e+06
## factor(ageClass)64.5:factor(reg_name)La Réunion 6.288e+06
## factor(ageClass)74.5:factor(reg_name)La Réunion 7.607e+06
## factor(ageClass)84.5:factor(reg_name)La Réunion 1.164e+07
## factor(ageClass)94.5:factor(reg_name)La Réunion 8.349e+07
## factor(ageClass)14.5:factor(reg_name)Martinique 2.263e+07
## factor(ageClass)24.5:factor(reg_name)Martinique 2.112e+07
## factor(ageClass)34.5:factor(reg_name)Martinique 2.119e+07
## factor(ageClass)44.5:factor(reg_name)Martinique 2.133e+07
## factor(ageClass)54.5:factor(reg_name)Martinique 2.104e+07
## factor(ageClass)64.5:factor(reg_name)Martinique 2.185e+07
## factor(ageClass)74.5:factor(reg_name)Martinique 2.319e+07
## factor(ageClass)84.5:factor(reg_name)Martinique 2.313e+07
## factor(ageClass)94.5:factor(reg_name)Martinique 3.277e+07
## factor(ageClass)14.5:factor(reg_name)Mayotte 1.425e+08
## factor(ageClass)24.5:factor(reg_name)Mayotte 1.420e+08
## factor(ageClass)34.5:factor(reg_name)Mayotte 1.420e+08
## factor(ageClass)44.5:factor(reg_name)Mayotte 1.420e+08
## factor(ageClass)54.5:factor(reg_name)Mayotte 1.420e+08
## factor(ageClass)64.5:factor(reg_name)Mayotte 1.418e+08
## factor(ageClass)74.5:factor(reg_name)Mayotte 1.429e+08
## factor(ageClass)84.5:factor(reg_name)Mayotte 1.565e+08
## factor(ageClass)94.5:factor(reg_name)Mayotte NA
## factor(ageClass)14.5:factor(reg_name)Normandie 2.094e+06
## factor(ageClass)24.5:factor(reg_name)Normandie 2.322e+06
## factor(ageClass)34.5:factor(reg_name)Normandie 2.303e+06
## factor(ageClass)44.5:factor(reg_name)Normandie 2.292e+06
## factor(ageClass)54.5:factor(reg_name)Normandie 2.305e+06
## factor(ageClass)64.5:factor(reg_name)Normandie 2.394e+06
## factor(ageClass)74.5:factor(reg_name)Normandie 2.564e+06
## factor(ageClass)84.5:factor(reg_name)Normandie 2.779e+06
## factor(ageClass)94.5:factor(reg_name)Normandie 3.480e+06
## factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine 2.156e+06
## factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine 2.137e+06
## factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine 2.146e+06
## factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine 2.139e+06
## factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine 2.155e+06
## factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine 2.264e+06
## factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine 2.431e+06
## factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine 2.586e+06
## factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine 3.086e+06
## factor(ageClass)14.5:factor(reg_name)Occitanie 1.948e+06
## factor(ageClass)24.5:factor(reg_name)Occitanie 1.925e+06
## factor(ageClass)34.5:factor(reg_name)Occitanie 1.922e+06
## factor(ageClass)44.5:factor(reg_name)Occitanie 1.926e+06
## factor(ageClass)54.5:factor(reg_name)Occitanie 1.929e+06
## factor(ageClass)64.5:factor(reg_name)Occitanie 2.031e+06
## factor(ageClass)74.5:factor(reg_name)Occitanie 2.151e+06
## factor(ageClass)84.5:factor(reg_name)Occitanie 2.258e+06
## factor(ageClass)94.5:factor(reg_name)Occitanie 2.617e+06
## factor(ageClass)14.5:factor(reg_name)Pays de la Loire 2.198e+06
## factor(ageClass)24.5:factor(reg_name)Pays de la Loire 2.193e+06
## factor(ageClass)34.5:factor(reg_name)Pays de la Loire 2.209e+06
## factor(ageClass)44.5:factor(reg_name)Pays de la Loire 2.201e+06
## factor(ageClass)54.5:factor(reg_name)Pays de la Loire 2.214e+06
## factor(ageClass)64.5:factor(reg_name)Pays de la Loire 2.339e+06
## factor(ageClass)74.5:factor(reg_name)Pays de la Loire 2.495e+06
## factor(ageClass)84.5:factor(reg_name)Pays de la Loire 2.645e+06
## factor(ageClass)94.5:factor(reg_name)Pays de la Loire 3.109e+06
## factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.731e+06
## factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.714e+06
## factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.703e+06
## factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.700e+06
## factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.705e+06
## factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.789e+06
## factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.888e+06
## factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur 2.023e+06
## factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur 2.412e+06
## time:factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté 1.221e+05
## time:factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté 1.227e+05
## time:factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté 1.231e+05
## time:factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté 1.221e+05
## time:factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté 1.230e+05
## time:factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté 1.276e+05
## time:factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté 1.375e+05
## time:factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté 1.509e+05
## time:factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté 1.919e+05
## time:factor(ageClass)14.5:factor(reg_name)Bretagne 1.236e+05
## time:factor(ageClass)24.5:factor(reg_name)Bretagne 1.219e+05
## time:factor(ageClass)34.5:factor(reg_name)Bretagne 1.253e+05
## time:factor(ageClass)44.5:factor(reg_name)Bretagne 1.241e+05
## time:factor(ageClass)54.5:factor(reg_name)Bretagne 1.265e+05
## time:factor(ageClass)64.5:factor(reg_name)Bretagne 1.375e+05
## time:factor(ageClass)74.5:factor(reg_name)Bretagne 1.536e+05
## time:factor(ageClass)84.5:factor(reg_name)Bretagne 1.674e+05
## time:factor(ageClass)94.5:factor(reg_name)Bretagne 2.252e+05
## time:factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire 1.362e+05
## time:factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire 1.357e+05
## time:factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire 1.363e+05
## time:factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire 1.352e+05
## time:factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire 1.363e+05
## time:factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire 1.412e+05
## time:factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire 1.512e+05
## time:factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire 1.629e+05
## time:factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire 1.981e+05
## time:factor(ageClass)14.5:factor(reg_name)Corse 3.857e+05
## time:factor(ageClass)24.5:factor(reg_name)Corse 3.806e+05
## time:factor(ageClass)34.5:factor(reg_name)Corse 3.582e+05
## time:factor(ageClass)44.5:factor(reg_name)Corse 3.713e+05
## time:factor(ageClass)54.5:factor(reg_name)Corse 3.648e+05
## time:factor(ageClass)64.5:factor(reg_name)Corse 3.707e+05
## time:factor(ageClass)74.5:factor(reg_name)Corse 3.984e+05
## time:factor(ageClass)84.5:factor(reg_name)Corse 4.483e+05
## time:factor(ageClass)94.5:factor(reg_name)Corse 5.781e+05
## time:factor(ageClass)14.5:factor(reg_name)Grand Est 8.716e+04
## time:factor(ageClass)24.5:factor(reg_name)Grand Est 8.711e+04
## time:factor(ageClass)34.5:factor(reg_name)Grand Est 8.708e+04
## time:factor(ageClass)44.5:factor(reg_name)Grand Est 8.734e+04
## time:factor(ageClass)54.5:factor(reg_name)Grand Est 8.802e+04
## time:factor(ageClass)64.5:factor(reg_name)Grand Est 9.367e+04
## time:factor(ageClass)74.5:factor(reg_name)Grand Est 1.020e+05
## time:factor(ageClass)84.5:factor(reg_name)Grand Est 1.124e+05
## time:factor(ageClass)94.5:factor(reg_name)Grand Est 1.495e+05
## time:factor(ageClass)14.5:factor(reg_name)Guadeloupe 1.619e+06
## time:factor(ageClass)24.5:factor(reg_name)Guadeloupe 1.630e+06
## time:factor(ageClass)34.5:factor(reg_name)Guadeloupe 1.614e+06
## time:factor(ageClass)44.5:factor(reg_name)Guadeloupe 1.605e+06
## time:factor(ageClass)54.5:factor(reg_name)Guadeloupe 1.597e+06
## time:factor(ageClass)64.5:factor(reg_name)Guadeloupe 1.615e+06
## time:factor(ageClass)74.5:factor(reg_name)Guadeloupe 1.733e+06
## time:factor(ageClass)84.5:factor(reg_name)Guadeloupe 1.788e+06
## time:factor(ageClass)94.5:factor(reg_name)Guadeloupe 5.376e+06
## time:factor(ageClass)14.5:factor(reg_name)Guyane 2.257e+06
## time:factor(ageClass)24.5:factor(reg_name)Guyane 2.310e+06
## time:factor(ageClass)34.5:factor(reg_name)Guyane 2.264e+06
## time:factor(ageClass)44.5:factor(reg_name)Guyane 2.252e+06
## time:factor(ageClass)54.5:factor(reg_name)Guyane 2.279e+06
## time:factor(ageClass)64.5:factor(reg_name)Guyane 2.554e+06
## time:factor(ageClass)74.5:factor(reg_name)Guyane 2.133e+07
## time:factor(ageClass)84.5:factor(reg_name)Guyane 1.619e+07
## time:factor(ageClass)94.5:factor(reg_name)Guyane NA
## time:factor(ageClass)14.5:factor(reg_name)Hauts-de-France 7.308e+04
## time:factor(ageClass)24.5:factor(reg_name)Hauts-de-France 7.321e+04
## time:factor(ageClass)34.5:factor(reg_name)Hauts-de-France 7.278e+04
## time:factor(ageClass)44.5:factor(reg_name)Hauts-de-France 7.280e+04
## time:factor(ageClass)54.5:factor(reg_name)Hauts-de-France 7.372e+04
## time:factor(ageClass)64.5:factor(reg_name)Hauts-de-France 7.857e+04
## time:factor(ageClass)74.5:factor(reg_name)Hauts-de-France 8.599e+04
## time:factor(ageClass)84.5:factor(reg_name)Hauts-de-France 9.697e+04
## time:factor(ageClass)94.5:factor(reg_name)Hauts-de-France 1.339e+05
## time:factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France 6.819e+04
## time:factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France 6.778e+04
## time:factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France 6.744e+04
## time:factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France 6.756e+04
## time:factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France 6.852e+04
## time:factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France 7.268e+04
## time:factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France 8.132e+04
## time:factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France 9.241e+04
## time:factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France 1.273e+05
## time:factor(ageClass)14.5:factor(reg_name)La Réunion 2.936e+05
## time:factor(ageClass)24.5:factor(reg_name)La Réunion 2.971e+05
## time:factor(ageClass)34.5:factor(reg_name)La Réunion 2.887e+05
## time:factor(ageClass)44.5:factor(reg_name)La Réunion 2.899e+05
## time:factor(ageClass)54.5:factor(reg_name)La Réunion 2.926e+05
## time:factor(ageClass)64.5:factor(reg_name)La Réunion 3.270e+05
## time:factor(ageClass)74.5:factor(reg_name)La Réunion 4.000e+05
## time:factor(ageClass)84.5:factor(reg_name)La Réunion 5.559e+05
## time:factor(ageClass)94.5:factor(reg_name)La Réunion 3.214e+06
## time:factor(ageClass)14.5:factor(reg_name)Martinique 1.019e+06
## time:factor(ageClass)24.5:factor(reg_name)Martinique 9.614e+05
## time:factor(ageClass)34.5:factor(reg_name)Martinique 9.624e+05
## time:factor(ageClass)44.5:factor(reg_name)Martinique 9.670e+05
## time:factor(ageClass)54.5:factor(reg_name)Martinique 9.562e+05
## time:factor(ageClass)64.5:factor(reg_name)Martinique 9.943e+05
## time:factor(ageClass)74.5:factor(reg_name)Martinique 1.052e+06
## time:factor(ageClass)84.5:factor(reg_name)Martinique 1.169e+06
## time:factor(ageClass)94.5:factor(reg_name)Martinique 2.122e+06
## time:factor(ageClass)14.5:factor(reg_name)Mayotte 1.275e+07
## time:factor(ageClass)24.5:factor(reg_name)Mayotte 1.269e+07
## time:factor(ageClass)34.5:factor(reg_name)Mayotte 1.270e+07
## time:factor(ageClass)44.5:factor(reg_name)Mayotte 1.270e+07
## time:factor(ageClass)54.5:factor(reg_name)Mayotte 1.269e+07
## time:factor(ageClass)64.5:factor(reg_name)Mayotte 1.268e+07
## time:factor(ageClass)74.5:factor(reg_name)Mayotte 1.277e+07
## time:factor(ageClass)84.5:factor(reg_name)Mayotte 1.324e+07
## time:factor(ageClass)94.5:factor(reg_name)Mayotte NA
## time:factor(ageClass)14.5:factor(reg_name)Normandie 1.056e+05
## time:factor(ageClass)24.5:factor(reg_name)Normandie 1.136e+05
## time:factor(ageClass)34.5:factor(reg_name)Normandie 1.128e+05
## time:factor(ageClass)44.5:factor(reg_name)Normandie 1.125e+05
## time:factor(ageClass)54.5:factor(reg_name)Normandie 1.135e+05
## time:factor(ageClass)64.5:factor(reg_name)Normandie 1.178e+05
## time:factor(ageClass)74.5:factor(reg_name)Normandie 1.282e+05
## time:factor(ageClass)84.5:factor(reg_name)Normandie 1.415e+05
## time:factor(ageClass)94.5:factor(reg_name)Normandie 1.810e+05
## time:factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine 1.041e+05
## time:factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine 1.041e+05
## time:factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine 1.043e+05
## time:factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine 1.037e+05
## time:factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine 1.054e+05
## time:factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine 1.114e+05
## time:factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine 1.215e+05
## time:factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine 1.332e+05
## time:factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine 1.714e+05
## time:factor(ageClass)14.5:factor(reg_name)Occitanie 9.429e+04
## time:factor(ageClass)24.5:factor(reg_name)Occitanie 9.385e+04
## time:factor(ageClass)34.5:factor(reg_name)Occitanie 9.354e+04
## time:factor(ageClass)44.5:factor(reg_name)Occitanie 9.362e+04
## time:factor(ageClass)54.5:factor(reg_name)Occitanie 9.438e+04
## time:factor(ageClass)64.5:factor(reg_name)Occitanie 9.962e+04
## time:factor(ageClass)74.5:factor(reg_name)Occitanie 1.072e+05
## time:factor(ageClass)84.5:factor(reg_name)Occitanie 1.165e+05
## time:factor(ageClass)94.5:factor(reg_name)Occitanie 1.469e+05
## time:factor(ageClass)14.5:factor(reg_name)Pays de la Loire 1.081e+05
## time:factor(ageClass)24.5:factor(reg_name)Pays de la Loire 1.083e+05
## time:factor(ageClass)34.5:factor(reg_name)Pays de la Loire 1.093e+05
## time:factor(ageClass)44.5:factor(reg_name)Pays de la Loire 1.089e+05
## time:factor(ageClass)54.5:factor(reg_name)Pays de la Loire 1.098e+05
## time:factor(ageClass)64.5:factor(reg_name)Pays de la Loire 1.164e+05
## time:factor(ageClass)74.5:factor(reg_name)Pays de la Loire 1.259e+05
## time:factor(ageClass)84.5:factor(reg_name)Pays de la Loire 1.368e+05
## time:factor(ageClass)94.5:factor(reg_name)Pays de la Loire 1.704e+05
## time:factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur 8.704e+04
## time:factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur 8.648e+04
## time:factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur 8.603e+04
## time:factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur 8.585e+04
## time:factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur 8.650e+04
## time:factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur 9.100e+04
## time:factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur 9.758e+04
## time:factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.077e+05
## time:factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.395e+05
## z value
## (Intercept) -2.377e+09
## time 9.507e+08
## factor(ageClass)14.5 4.997e+09
## factor(ageClass)24.5 3.676e+09
## factor(ageClass)34.5 -1.929e+08
## factor(ageClass)44.5 3.538e+09
## factor(ageClass)54.5 3.565e+09
## factor(ageClass)64.5 3.943e+08
## factor(ageClass)74.5 -1.079e+09
## factor(ageClass)84.5 -1.493e+08
## factor(ageClass)94.5 -1.204e+09
## factor(reg_name)Bourgogne-Franche-Comté 1.737e+09
## factor(reg_name)Bretagne 3.345e+08
## factor(reg_name)Centre-Val de Loire 1.197e+08
## factor(reg_name)Corse 8.651e+08
## factor(reg_name)Grand Est -4.523e+08
## factor(reg_name)Guadeloupe 1.766e+08
## factor(reg_name)Guyane -4.071e+07
## factor(reg_name)Hauts-de-France 4.249e+08
## factor(reg_name)ÃŽle-de-France 4.888e+08
## factor(reg_name)La Réunion -4.122e+08
## factor(reg_name)Martinique -1.493e+08
## factor(reg_name)Mayotte 2.008e+07
## factor(reg_name)Normandie -5.755e+07
## factor(reg_name)Nouvelle-Aquitaine 3.657e+07
## factor(reg_name)Occitanie 3.047e+08
## factor(reg_name)Pays de la Loire -1.037e+08
## factor(reg_name)Provence-Alpes-Côte d'Azur 4.090e+08
## time:factor(ageClass)14.5 -2.422e+09
## time:factor(ageClass)24.5 2.660e+08
## time:factor(ageClass)34.5 2.025e+08
## time:factor(ageClass)44.5 -2.796e+09
## time:factor(ageClass)54.5 3.418e+08
## time:factor(ageClass)64.5 2.710e+09
## time:factor(ageClass)74.5 1.367e+09
## time:factor(ageClass)84.5 8.848e+08
## time:factor(ageClass)94.5 1.163e+09
## time:factor(reg_name)Bourgogne-Franche-Comté 1.735e+07
## time:factor(reg_name)Bretagne -2.157e+08
## time:factor(reg_name)Centre-Val de Loire -1.358e+08
## time:factor(reg_name)Corse -1.959e+08
## time:factor(reg_name)Grand Est -7.361e+07
## time:factor(reg_name)Guadeloupe 3.760e+07
## time:factor(reg_name)Guyane 2.776e+07
## time:factor(reg_name)Hauts-de-France -3.374e+08
## time:factor(reg_name)ÃŽle-de-France -3.202e+08
## time:factor(reg_name)La Réunion -1.332e+08
## time:factor(reg_name)Martinique 3.009e+08
## time:factor(reg_name)Mayotte 1.244e+07
## time:factor(reg_name)Normandie 1.446e+07
## time:factor(reg_name)Nouvelle-Aquitaine 3.452e+07
## time:factor(reg_name)Occitanie -3.202e+08
## time:factor(reg_name)Pays de la Loire -6.861e+06
## time:factor(reg_name)Provence-Alpes-Côte d'Azur -1.729e+08
## factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté -2.326e+09
## factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté -1.739e+09
## factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté 1.080e+07
## factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté -1.726e+09
## factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté -1.775e+09
## factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté -3.541e+08
## factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté 3.332e+08
## factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté -2.040e+08
## factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté 3.519e+08
## factor(ageClass)14.5:factor(reg_name)Bretagne -2.458e+09
## factor(ageClass)24.5:factor(reg_name)Bretagne -1.837e+09
## factor(ageClass)34.5:factor(reg_name)Bretagne -7.705e+07
## factor(ageClass)44.5:factor(reg_name)Bretagne -1.731e+09
## factor(ageClass)54.5:factor(reg_name)Bretagne 5.458e+07
## factor(ageClass)64.5:factor(reg_name)Bretagne -4.148e+08
## factor(ageClass)74.5:factor(reg_name)Bretagne 2.927e+08
## factor(ageClass)84.5:factor(reg_name)Bretagne -1.972e+08
## factor(ageClass)94.5:factor(reg_name)Bretagne 3.053e+08
## factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire -5.195e+08
## factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire -1.036e+08
## factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire -6.556e+07
## factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire 1.811e+07
## factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire -2.348e+07
## factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire 1.011e+09
## factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire 2.215e+08
## factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire -3.240e+08
## factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire 1.552e+08
## factor(ageClass)14.5:factor(reg_name)Corse -8.181e+08
## factor(ageClass)24.5:factor(reg_name)Corse -6.180e+08
## factor(ageClass)34.5:factor(reg_name)Corse -8.674e+07
## factor(ageClass)44.5:factor(reg_name)Corse -6.156e+08
## factor(ageClass)54.5:factor(reg_name)Corse -5.912e+08
## factor(ageClass)64.5:factor(reg_name)Corse -1.215e+08
## factor(ageClass)74.5:factor(reg_name)Corse 7.750e+07
## factor(ageClass)84.5:factor(reg_name)Corse -7.996e+07
## factor(ageClass)94.5:factor(reg_name)Corse 2.522e+08
## factor(ageClass)14.5:factor(reg_name)Grand Est -8.064e+08
## factor(ageClass)24.5:factor(reg_name)Grand Est 1.610e+08
## factor(ageClass)34.5:factor(reg_name)Grand Est 9.971e+07
## factor(ageClass)44.5:factor(reg_name)Grand Est 2.520e+08
## factor(ageClass)54.5:factor(reg_name)Grand Est 1.580e+08
## factor(ageClass)64.5:factor(reg_name)Grand Est 2.087e+09
## factor(ageClass)74.5:factor(reg_name)Grand Est 4.719e+08
## factor(ageClass)84.5:factor(reg_name)Grand Est -1.907e+08
## factor(ageClass)94.5:factor(reg_name)Grand Est 5.084e+08
## factor(ageClass)14.5:factor(reg_name)Guadeloupe -1.574e+08
## factor(ageClass)24.5:factor(reg_name)Guadeloupe -8.913e+07
## factor(ageClass)34.5:factor(reg_name)Guadeloupe 2.007e+07
## factor(ageClass)44.5:factor(reg_name)Guadeloupe -9.403e+07
## factor(ageClass)54.5:factor(reg_name)Guadeloupe -1.204e+08
## factor(ageClass)64.5:factor(reg_name)Guadeloupe 2.767e+07
## factor(ageClass)74.5:factor(reg_name)Guadeloupe 5.885e+07
## factor(ageClass)84.5:factor(reg_name)Guadeloupe 8.142e+07
## factor(ageClass)94.5:factor(reg_name)Guadeloupe -5.335e+07
## factor(ageClass)14.5:factor(reg_name)Guyane -7.505e+07
## factor(ageClass)24.5:factor(reg_name)Guyane -2.511e+05
## factor(ageClass)34.5:factor(reg_name)Guyane 1.627e+08
## factor(ageClass)44.5:factor(reg_name)Guyane -4.086e+07
## factor(ageClass)54.5:factor(reg_name)Guyane 2.663e+07
## factor(ageClass)64.5:factor(reg_name)Guyane 6.976e+07
## factor(ageClass)74.5:factor(reg_name)Guyane -5.151e+07
## factor(ageClass)84.5:factor(reg_name)Guyane 4.371e+07
## factor(ageClass)94.5:factor(reg_name)Guyane NA
## factor(ageClass)14.5:factor(reg_name)Hauts-de-France -3.875e+09
## factor(ageClass)24.5:factor(reg_name)Hauts-de-France 1.233e+08
## factor(ageClass)34.5:factor(reg_name)Hauts-de-France 7.268e+07
## factor(ageClass)44.5:factor(reg_name)Hauts-de-France -2.809e+09
## factor(ageClass)54.5:factor(reg_name)Hauts-de-France 1.742e+08
## factor(ageClass)64.5:factor(reg_name)Hauts-de-France -5.017e+08
## factor(ageClass)74.5:factor(reg_name)Hauts-de-France 5.518e+08
## factor(ageClass)84.5:factor(reg_name)Hauts-de-France -3.278e+08
## factor(ageClass)94.5:factor(reg_name)Hauts-de-France 5.323e+08
## factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France -4.128e+09
## factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France -3.180e+09
## factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France 8.100e+07
## factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France -2.970e+09
## factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France 1.479e+08
## factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France -4.991e+08
## factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France 5.039e+08
## factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France -5.665e+08
## factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France 3.432e+08
## factor(ageClass)14.5:factor(reg_name)La Réunion -1.023e+09
## factor(ageClass)24.5:factor(reg_name)La Réunion -7.696e+08
## factor(ageClass)34.5:factor(reg_name)La Réunion 9.441e+08
## factor(ageClass)44.5:factor(reg_name)La Réunion -7.315e+08
## factor(ageClass)54.5:factor(reg_name)La Réunion 1.400e+08
## factor(ageClass)64.5:factor(reg_name)La Réunion 1.718e+07
## factor(ageClass)74.5:factor(reg_name)La Réunion 1.572e+08
## factor(ageClass)84.5:factor(reg_name)La Réunion -1.777e+07
## factor(ageClass)94.5:factor(reg_name)La Réunion -9.045e+07
## factor(ageClass)14.5:factor(reg_name)Martinique -4.737e+06
## factor(ageClass)24.5:factor(reg_name)Martinique -4.297e+06
## factor(ageClass)34.5:factor(reg_name)Martinique 1.626e+08
## factor(ageClass)44.5:factor(reg_name)Martinique -4.461e+07
## factor(ageClass)54.5:factor(reg_name)Martinique 2.145e+08
## factor(ageClass)64.5:factor(reg_name)Martinique 3.415e+08
## factor(ageClass)74.5:factor(reg_name)Martinique 1.505e+08
## factor(ageClass)84.5:factor(reg_name)Martinique 1.845e+08
## factor(ageClass)94.5:factor(reg_name)Martinique 3.061e+08
## factor(ageClass)14.5:factor(reg_name)Mayotte -5.087e+07
## factor(ageClass)24.5:factor(reg_name)Mayotte -5.031e+07
## factor(ageClass)34.5:factor(reg_name)Mayotte -3.495e+07
## factor(ageClass)44.5:factor(reg_name)Mayotte -6.363e+07
## factor(ageClass)54.5:factor(reg_name)Mayotte -6.983e+07
## factor(ageClass)64.5:factor(reg_name)Mayotte -4.555e+07
## factor(ageClass)74.5:factor(reg_name)Mayotte -2.897e+07
## factor(ageClass)84.5:factor(reg_name)Mayotte -3.061e+07
## factor(ageClass)94.5:factor(reg_name)Mayotte NA
## factor(ageClass)14.5:factor(reg_name)Normandie -1.458e+09
## factor(ageClass)24.5:factor(reg_name)Normandie 1.104e+08
## factor(ageClass)34.5:factor(reg_name)Normandie 1.922e+07
## factor(ageClass)44.5:factor(reg_name)Normandie -1.702e+09
## factor(ageClass)54.5:factor(reg_name)Normandie 1.555e+08
## factor(ageClass)64.5:factor(reg_name)Normandie -3.528e+08
## factor(ageClass)74.5:factor(reg_name)Normandie 3.692e+08
## factor(ageClass)84.5:factor(reg_name)Normandie -1.628e+08
## factor(ageClass)94.5:factor(reg_name)Normandie 3.316e+08
## factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine -1.388e+09
## factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine 2.430e+07
## factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine -1.150e+08
## factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine -1.993e+09
## factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine -4.653e+07
## factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine -8.488e+07
## factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine 1.498e+08
## factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine -3.784e+08
## factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine 9.833e+07
## factor(ageClass)14.5:factor(reg_name)Occitanie -4.055e+08
## factor(ageClass)24.5:factor(reg_name)Occitanie -1.751e+07
## factor(ageClass)34.5:factor(reg_name)Occitanie 1.118e+07
## factor(ageClass)44.5:factor(reg_name)Occitanie -2.273e+09
## factor(ageClass)54.5:factor(reg_name)Occitanie -5.697e+07
## factor(ageClass)64.5:factor(reg_name)Occitanie -5.837e+08
## factor(ageClass)74.5:factor(reg_name)Occitanie 2.485e+08
## factor(ageClass)84.5:factor(reg_name)Occitanie -3.613e+08
## factor(ageClass)94.5:factor(reg_name)Occitanie 3.235e+08
## factor(ageClass)14.5:factor(reg_name)Pays de la Loire -2.627e+09
## factor(ageClass)24.5:factor(reg_name)Pays de la Loire 9.215e+07
## factor(ageClass)34.5:factor(reg_name)Pays de la Loire 5.712e+07
## factor(ageClass)44.5:factor(reg_name)Pays de la Loire -1.845e+09
## factor(ageClass)54.5:factor(reg_name)Pays de la Loire 1.623e+08
## factor(ageClass)64.5:factor(reg_name)Pays de la Loire -3.290e+08
## factor(ageClass)74.5:factor(reg_name)Pays de la Loire 4.140e+08
## factor(ageClass)84.5:factor(reg_name)Pays de la Loire -1.098e+08
## factor(ageClass)94.5:factor(reg_name)Pays de la Loire 3.715e+08
## factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur -3.970e+09
## factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur -2.959e+07
## factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur -2.377e+07
## factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur -2.579e+09
## factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur 4.357e+07
## factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur -4.823e+08
## factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.780e+08
## factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur -4.985e+08
## factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur 2.468e+08
## time:factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté 1.316e+09
## time:factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté 5.933e+07
## time:factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté 9.878e+07
## time:factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté 1.544e+09
## time:factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté 9.355e+07
## time:factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté -1.068e+09
## time:factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté -4.895e+08
## time:factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté -3.614e+08
## time:factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté -5.269e+08
## time:factor(ageClass)14.5:factor(reg_name)Bretagne 1.248e+09
## time:factor(ageClass)24.5:factor(reg_name)Bretagne -2.787e+06
## time:factor(ageClass)34.5:factor(reg_name)Bretagne 8.127e+07
## time:factor(ageClass)44.5:factor(reg_name)Bretagne 1.385e+09
## time:factor(ageClass)54.5:factor(reg_name)Bretagne -4.098e+06
## time:factor(ageClass)64.5:factor(reg_name)Bretagne -9.865e+08
## time:factor(ageClass)74.5:factor(reg_name)Bretagne -4.537e+08
## time:factor(ageClass)84.5:factor(reg_name)Bretagne -2.512e+08
## time:factor(ageClass)94.5:factor(reg_name)Bretagne -3.714e+08
## time:factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire 1.088e+09
## time:factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire 9.003e+07
## time:factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire 4.253e+07
## time:factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire 1.317e+09
## time:factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire 5.265e+06
## time:factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire -8.578e+08
## time:factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire -4.574e+08
## time:factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire -1.695e+08
## time:factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire -3.749e+08
## time:factor(ageClass)14.5:factor(reg_name)Corse 4.932e+08
## time:factor(ageClass)24.5:factor(reg_name)Corse 8.474e+07
## time:factor(ageClass)34.5:factor(reg_name)Corse 1.194e+08
## time:factor(ageClass)44.5:factor(reg_name)Corse 5.477e+08
## time:factor(ageClass)54.5:factor(reg_name)Corse 2.977e+07
## time:factor(ageClass)64.5:factor(reg_name)Corse -3.464e+08
## time:factor(ageClass)74.5:factor(reg_name)Corse -1.287e+08
## time:factor(ageClass)84.5:factor(reg_name)Corse -7.537e+07
## time:factor(ageClass)94.5:factor(reg_name)Corse -2.806e+08
## time:factor(ageClass)14.5:factor(reg_name)Grand Est 1.763e+09
## time:factor(ageClass)24.5:factor(reg_name)Grand Est 1.166e+06
## time:factor(ageClass)34.5:factor(reg_name)Grand Est -1.510e+07
## time:factor(ageClass)44.5:factor(reg_name)Grand Est 1.906e+09
## time:factor(ageClass)54.5:factor(reg_name)Grand Est -1.124e+08
## time:factor(ageClass)64.5:factor(reg_name)Grand Est -1.697e+09
## time:factor(ageClass)74.5:factor(reg_name)Grand Est -7.136e+08
## time:factor(ageClass)84.5:factor(reg_name)Grand Est -3.882e+08
## time:factor(ageClass)94.5:factor(reg_name)Grand Est -6.972e+08
## time:factor(ageClass)14.5:factor(reg_name)Guadeloupe 2.959e+07
## time:factor(ageClass)24.5:factor(reg_name)Guadeloupe -6.227e+07
## time:factor(ageClass)34.5:factor(reg_name)Guadeloupe -2.259e+07
## time:factor(ageClass)44.5:factor(reg_name)Guadeloupe 4.654e+07
## time:factor(ageClass)54.5:factor(reg_name)Guadeloupe -4.735e+07
## time:factor(ageClass)64.5:factor(reg_name)Guadeloupe -1.482e+08
## time:factor(ageClass)74.5:factor(reg_name)Guadeloupe -7.353e+07
## time:factor(ageClass)84.5:factor(reg_name)Guadeloupe -1.150e+08
## time:factor(ageClass)94.5:factor(reg_name)Guadeloupe 3.502e+07
## time:factor(ageClass)14.5:factor(reg_name)Guyane 2.211e+07
## time:factor(ageClass)24.5:factor(reg_name)Guyane -5.580e+06
## time:factor(ageClass)34.5:factor(reg_name)Guyane -6.238e+07
## time:factor(ageClass)44.5:factor(reg_name)Guyane 5.405e+07
## time:factor(ageClass)54.5:factor(reg_name)Guyane -5.545e+07
## time:factor(ageClass)64.5:factor(reg_name)Guyane -1.431e+08
## time:factor(ageClass)74.5:factor(reg_name)Guyane 5.412e+07
## time:factor(ageClass)84.5:factor(reg_name)Guyane -3.448e+07
## time:factor(ageClass)94.5:factor(reg_name)Guyane NA
## time:factor(ageClass)14.5:factor(reg_name)Hauts-de-France 1.966e+09
## time:factor(ageClass)24.5:factor(reg_name)Hauts-de-France -8.849e+07
## time:factor(ageClass)34.5:factor(reg_name)Hauts-de-France -5.255e+06
## time:factor(ageClass)44.5:factor(reg_name)Hauts-de-France 2.307e+09
## time:factor(ageClass)54.5:factor(reg_name)Hauts-de-France -1.051e+08
## time:factor(ageClass)64.5:factor(reg_name)Hauts-de-France -1.889e+09
## time:factor(ageClass)74.5:factor(reg_name)Hauts-de-France -8.811e+08
## time:factor(ageClass)84.5:factor(reg_name)Hauts-de-France -4.707e+08
## time:factor(ageClass)94.5:factor(reg_name)Hauts-de-France -7.325e+08
## time:factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France 2.039e+09
## time:factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France -1.374e+08
## time:factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France -1.250e+08
## time:factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France 2.364e+09
## time:factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France -1.959e+08
## time:factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France -2.178e+09
## time:factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France -8.918e+08
## time:factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France -3.053e+08
## time:factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France -6.013e+08
## time:factor(ageClass)14.5:factor(reg_name)La Réunion 4.427e+08
## time:factor(ageClass)24.5:factor(reg_name)La Réunion -4.597e+07
## time:factor(ageClass)34.5:factor(reg_name)La Réunion -1.618e+08
## time:factor(ageClass)44.5:factor(reg_name)La Réunion 5.463e+08
## time:factor(ageClass)54.5:factor(reg_name)La Réunion -7.537e+08
## time:factor(ageClass)64.5:factor(reg_name)La Réunion -6.034e+08
## time:factor(ageClass)74.5:factor(reg_name)La Réunion -2.192e+08
## time:factor(ageClass)84.5:factor(reg_name)La Réunion -8.484e+07
## time:factor(ageClass)94.5:factor(reg_name)La Réunion 8.983e+07
## time:factor(ageClass)14.5:factor(reg_name)Martinique -5.990e+07
## time:factor(ageClass)24.5:factor(reg_name)Martinique -3.092e+08
## time:factor(ageClass)34.5:factor(reg_name)Martinique -2.808e+08
## time:factor(ageClass)44.5:factor(reg_name)Martinique -9.803e+07
## time:factor(ageClass)54.5:factor(reg_name)Martinique -3.711e+08
## time:factor(ageClass)64.5:factor(reg_name)Martinique -6.032e+08
## time:factor(ageClass)74.5:factor(reg_name)Martinique -3.160e+08
## time:factor(ageClass)84.5:factor(reg_name)Martinique -8.201e+07
## time:factor(ageClass)94.5:factor(reg_name)Martinique -2.968e+08
## time:factor(ageClass)14.5:factor(reg_name)Mayotte -1.877e+07
## time:factor(ageClass)24.5:factor(reg_name)Mayotte -2.044e+07
## time:factor(ageClass)34.5:factor(reg_name)Mayotte -1.325e+07
## time:factor(ageClass)44.5:factor(reg_name)Mayotte -3.653e+06
## time:factor(ageClass)54.5:factor(reg_name)Mayotte -2.810e+06
## time:factor(ageClass)64.5:factor(reg_name)Mayotte -1.744e+07
## time:factor(ageClass)74.5:factor(reg_name)Mayotte -1.084e+07
## time:factor(ageClass)84.5:factor(reg_name)Mayotte -2.035e+07
## time:factor(ageClass)94.5:factor(reg_name)Mayotte NA
## time:factor(ageClass)14.5:factor(reg_name)Normandie 3.066e+08
## time:factor(ageClass)24.5:factor(reg_name)Normandie -2.165e+07
## time:factor(ageClass)34.5:factor(reg_name)Normandie 5.291e+07
## time:factor(ageClass)44.5:factor(reg_name)Normandie 1.445e+09
## time:factor(ageClass)54.5:factor(reg_name)Normandie -9.919e+07
## time:factor(ageClass)64.5:factor(reg_name)Normandie -1.271e+09
## time:factor(ageClass)74.5:factor(reg_name)Normandie -6.185e+08
## time:factor(ageClass)84.5:factor(reg_name)Normandie -3.313e+08
## time:factor(ageClass)94.5:factor(reg_name)Normandie -5.648e+08
## time:factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine 2.108e+08
## time:factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine -8.879e+07
## time:factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine 5.176e+07
## time:factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine 1.592e+09
## time:factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine -6.409e+07
## time:factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine -1.718e+09
## time:factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine -5.520e+08
## time:factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine -4.109e+08
## time:factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine -5.947e+08
## time:factor(ageClass)14.5:factor(reg_name)Occitanie -4.897e+08
## time:factor(ageClass)24.5:factor(reg_name)Occitanie 5.898e+07
## time:factor(ageClass)34.5:factor(reg_name)Occitanie 9.063e+07
## time:factor(ageClass)44.5:factor(reg_name)Occitanie 1.930e+09
## time:factor(ageClass)54.5:factor(reg_name)Occitanie 1.238e+08
## time:factor(ageClass)64.5:factor(reg_name)Occitanie -1.296e+09
## time:factor(ageClass)74.5:factor(reg_name)Occitanie -5.094e+08
## time:factor(ageClass)84.5:factor(reg_name)Occitanie -2.779e+08
## time:factor(ageClass)94.5:factor(reg_name)Occitanie -5.297e+08
## time:factor(ageClass)14.5:factor(reg_name)Pays de la Loire 1.242e+09
## time:factor(ageClass)24.5:factor(reg_name)Pays de la Loire -8.755e+07
## time:factor(ageClass)34.5:factor(reg_name)Pays de la Loire -4.857e+07
## time:factor(ageClass)44.5:factor(reg_name)Pays de la Loire 1.488e+09
## time:factor(ageClass)54.5:factor(reg_name)Pays de la Loire -1.417e+08
## time:factor(ageClass)64.5:factor(reg_name)Pays de la Loire -1.303e+09
## time:factor(ageClass)74.5:factor(reg_name)Pays de la Loire -6.324e+08
## time:factor(ageClass)84.5:factor(reg_name)Pays de la Loire -5.123e+08
## time:factor(ageClass)94.5:factor(reg_name)Pays de la Loire -5.953e+08
## time:factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur 2.728e+09
## time:factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur -9.552e+07
## time:factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur -7.054e+07
## time:factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur 1.971e+09
## time:factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur -9.294e+07
## time:factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur -1.702e+09
## time:factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur -5.622e+08
## time:factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur -2.599e+08
## time:factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur -5.505e+08
## Pr(>|z|)
## (Intercept) <2e-16
## time <2e-16
## factor(ageClass)14.5 <2e-16
## factor(ageClass)24.5 <2e-16
## factor(ageClass)34.5 <2e-16
## factor(ageClass)44.5 <2e-16
## factor(ageClass)54.5 <2e-16
## factor(ageClass)64.5 <2e-16
## factor(ageClass)74.5 <2e-16
## factor(ageClass)84.5 <2e-16
## factor(ageClass)94.5 <2e-16
## factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(reg_name)Bretagne <2e-16
## factor(reg_name)Centre-Val de Loire <2e-16
## factor(reg_name)Corse <2e-16
## factor(reg_name)Grand Est <2e-16
## factor(reg_name)Guadeloupe <2e-16
## factor(reg_name)Guyane <2e-16
## factor(reg_name)Hauts-de-France <2e-16
## factor(reg_name)ÃŽle-de-France <2e-16
## factor(reg_name)La Réunion <2e-16
## factor(reg_name)Martinique <2e-16
## factor(reg_name)Mayotte <2e-16
## factor(reg_name)Normandie <2e-16
## factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(reg_name)Occitanie <2e-16
## factor(reg_name)Pays de la Loire <2e-16
## factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)14.5 <2e-16
## time:factor(ageClass)24.5 <2e-16
## time:factor(ageClass)34.5 <2e-16
## time:factor(ageClass)44.5 <2e-16
## time:factor(ageClass)54.5 <2e-16
## time:factor(ageClass)64.5 <2e-16
## time:factor(ageClass)74.5 <2e-16
## time:factor(ageClass)84.5 <2e-16
## time:factor(ageClass)94.5 <2e-16
## time:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(reg_name)Bretagne <2e-16
## time:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(reg_name)Corse <2e-16
## time:factor(reg_name)Grand Est <2e-16
## time:factor(reg_name)Guadeloupe <2e-16
## time:factor(reg_name)Guyane <2e-16
## time:factor(reg_name)Hauts-de-France <2e-16
## time:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(reg_name)La Réunion <2e-16
## time:factor(reg_name)Martinique <2e-16
## time:factor(reg_name)Mayotte <2e-16
## time:factor(reg_name)Normandie <2e-16
## time:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(reg_name)Occitanie <2e-16
## time:factor(reg_name)Pays de la Loire <2e-16
## time:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## factor(ageClass)14.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)24.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)34.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)44.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)54.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)64.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)74.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)84.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)94.5:factor(reg_name)Bretagne <2e-16
## factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire <2e-16
## factor(ageClass)14.5:factor(reg_name)Corse <2e-16
## factor(ageClass)24.5:factor(reg_name)Corse <2e-16
## factor(ageClass)34.5:factor(reg_name)Corse <2e-16
## factor(ageClass)44.5:factor(reg_name)Corse <2e-16
## factor(ageClass)54.5:factor(reg_name)Corse <2e-16
## factor(ageClass)64.5:factor(reg_name)Corse <2e-16
## factor(ageClass)74.5:factor(reg_name)Corse <2e-16
## factor(ageClass)84.5:factor(reg_name)Corse <2e-16
## factor(ageClass)94.5:factor(reg_name)Corse <2e-16
## factor(ageClass)14.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)24.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)34.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)44.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)54.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)64.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)74.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)84.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)94.5:factor(reg_name)Grand Est <2e-16
## factor(ageClass)14.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)24.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)34.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)44.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)54.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)64.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)74.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)84.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)94.5:factor(reg_name)Guadeloupe <2e-16
## factor(ageClass)14.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)24.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)34.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)44.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)54.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)64.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)74.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)84.5:factor(reg_name)Guyane <2e-16
## factor(ageClass)94.5:factor(reg_name)Guyane NA
## factor(ageClass)14.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)24.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)34.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)44.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)54.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)64.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)74.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)84.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)94.5:factor(reg_name)Hauts-de-France <2e-16
## factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France <2e-16
## factor(ageClass)14.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)24.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)34.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)44.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)54.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)64.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)74.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)84.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)94.5:factor(reg_name)La Réunion <2e-16
## factor(ageClass)14.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)24.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)34.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)44.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)54.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)64.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)74.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)84.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)94.5:factor(reg_name)Martinique <2e-16
## factor(ageClass)14.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)24.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)34.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)44.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)54.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)64.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)74.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)84.5:factor(reg_name)Mayotte <2e-16
## factor(ageClass)94.5:factor(reg_name)Mayotte NA
## factor(ageClass)14.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)24.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)34.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)44.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)54.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)64.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)74.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)84.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)94.5:factor(reg_name)Normandie <2e-16
## factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## factor(ageClass)14.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)24.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)34.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)44.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)54.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)64.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)74.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)84.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)94.5:factor(reg_name)Occitanie <2e-16
## factor(ageClass)14.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)24.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)34.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)44.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)54.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)64.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)74.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)84.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)94.5:factor(reg_name)Pays de la Loire <2e-16
## factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Bretagne <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Corse <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Grand Est <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Guadeloupe <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Guyane <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Guyane NA
## time:factor(ageClass)14.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Hauts-de-France <2e-16
## time:factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France <2e-16
## time:factor(ageClass)14.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)24.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)34.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)44.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)54.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)64.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)74.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)84.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)94.5:factor(reg_name)La Réunion <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Martinique <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Mayotte <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Mayotte NA
## time:factor(ageClass)14.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Normandie <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Occitanie <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Pays de la Loire <2e-16
## time:factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
## time:factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16
##
## (Intercept) ***
## time ***
## factor(ageClass)14.5 ***
## factor(ageClass)24.5 ***
## factor(ageClass)34.5 ***
## factor(ageClass)44.5 ***
## factor(ageClass)54.5 ***
## factor(ageClass)64.5 ***
## factor(ageClass)74.5 ***
## factor(ageClass)84.5 ***
## factor(ageClass)94.5 ***
## factor(reg_name)Bourgogne-Franche-Comté ***
## factor(reg_name)Bretagne ***
## factor(reg_name)Centre-Val de Loire ***
## factor(reg_name)Corse ***
## factor(reg_name)Grand Est ***
## factor(reg_name)Guadeloupe ***
## factor(reg_name)Guyane ***
## factor(reg_name)Hauts-de-France ***
## factor(reg_name)ÃŽle-de-France ***
## factor(reg_name)La Réunion ***
## factor(reg_name)Martinique ***
## factor(reg_name)Mayotte ***
## factor(reg_name)Normandie ***
## factor(reg_name)Nouvelle-Aquitaine ***
## factor(reg_name)Occitanie ***
## factor(reg_name)Pays de la Loire ***
## factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)14.5 ***
## time:factor(ageClass)24.5 ***
## time:factor(ageClass)34.5 ***
## time:factor(ageClass)44.5 ***
## time:factor(ageClass)54.5 ***
## time:factor(ageClass)64.5 ***
## time:factor(ageClass)74.5 ***
## time:factor(ageClass)84.5 ***
## time:factor(ageClass)94.5 ***
## time:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(reg_name)Bretagne ***
## time:factor(reg_name)Centre-Val de Loire ***
## time:factor(reg_name)Corse ***
## time:factor(reg_name)Grand Est ***
## time:factor(reg_name)Guadeloupe ***
## time:factor(reg_name)Guyane ***
## time:factor(reg_name)Hauts-de-France ***
## time:factor(reg_name)ÃŽle-de-France ***
## time:factor(reg_name)La Réunion ***
## time:factor(reg_name)Martinique ***
## time:factor(reg_name)Mayotte ***
## time:factor(reg_name)Normandie ***
## time:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(reg_name)Occitanie ***
## time:factor(reg_name)Pays de la Loire ***
## time:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté ***
## factor(ageClass)14.5:factor(reg_name)Bretagne ***
## factor(ageClass)24.5:factor(reg_name)Bretagne ***
## factor(ageClass)34.5:factor(reg_name)Bretagne ***
## factor(ageClass)44.5:factor(reg_name)Bretagne ***
## factor(ageClass)54.5:factor(reg_name)Bretagne ***
## factor(ageClass)64.5:factor(reg_name)Bretagne ***
## factor(ageClass)74.5:factor(reg_name)Bretagne ***
## factor(ageClass)84.5:factor(reg_name)Bretagne ***
## factor(ageClass)94.5:factor(reg_name)Bretagne ***
## factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire ***
## factor(ageClass)14.5:factor(reg_name)Corse ***
## factor(ageClass)24.5:factor(reg_name)Corse ***
## factor(ageClass)34.5:factor(reg_name)Corse ***
## factor(ageClass)44.5:factor(reg_name)Corse ***
## factor(ageClass)54.5:factor(reg_name)Corse ***
## factor(ageClass)64.5:factor(reg_name)Corse ***
## factor(ageClass)74.5:factor(reg_name)Corse ***
## factor(ageClass)84.5:factor(reg_name)Corse ***
## factor(ageClass)94.5:factor(reg_name)Corse ***
## factor(ageClass)14.5:factor(reg_name)Grand Est ***
## factor(ageClass)24.5:factor(reg_name)Grand Est ***
## factor(ageClass)34.5:factor(reg_name)Grand Est ***
## factor(ageClass)44.5:factor(reg_name)Grand Est ***
## factor(ageClass)54.5:factor(reg_name)Grand Est ***
## factor(ageClass)64.5:factor(reg_name)Grand Est ***
## factor(ageClass)74.5:factor(reg_name)Grand Est ***
## factor(ageClass)84.5:factor(reg_name)Grand Est ***
## factor(ageClass)94.5:factor(reg_name)Grand Est ***
## factor(ageClass)14.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)24.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)34.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)44.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)54.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)64.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)74.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)84.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)94.5:factor(reg_name)Guadeloupe ***
## factor(ageClass)14.5:factor(reg_name)Guyane ***
## factor(ageClass)24.5:factor(reg_name)Guyane ***
## factor(ageClass)34.5:factor(reg_name)Guyane ***
## factor(ageClass)44.5:factor(reg_name)Guyane ***
## factor(ageClass)54.5:factor(reg_name)Guyane ***
## factor(ageClass)64.5:factor(reg_name)Guyane ***
## factor(ageClass)74.5:factor(reg_name)Guyane ***
## factor(ageClass)84.5:factor(reg_name)Guyane ***
## factor(ageClass)94.5:factor(reg_name)Guyane
## factor(ageClass)14.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)24.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)34.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)44.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)54.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)64.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)74.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)84.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)94.5:factor(reg_name)Hauts-de-France ***
## factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France ***
## factor(ageClass)14.5:factor(reg_name)La Réunion ***
## factor(ageClass)24.5:factor(reg_name)La Réunion ***
## factor(ageClass)34.5:factor(reg_name)La Réunion ***
## factor(ageClass)44.5:factor(reg_name)La Réunion ***
## factor(ageClass)54.5:factor(reg_name)La Réunion ***
## factor(ageClass)64.5:factor(reg_name)La Réunion ***
## factor(ageClass)74.5:factor(reg_name)La Réunion ***
## factor(ageClass)84.5:factor(reg_name)La Réunion ***
## factor(ageClass)94.5:factor(reg_name)La Réunion ***
## factor(ageClass)14.5:factor(reg_name)Martinique ***
## factor(ageClass)24.5:factor(reg_name)Martinique ***
## factor(ageClass)34.5:factor(reg_name)Martinique ***
## factor(ageClass)44.5:factor(reg_name)Martinique ***
## factor(ageClass)54.5:factor(reg_name)Martinique ***
## factor(ageClass)64.5:factor(reg_name)Martinique ***
## factor(ageClass)74.5:factor(reg_name)Martinique ***
## factor(ageClass)84.5:factor(reg_name)Martinique ***
## factor(ageClass)94.5:factor(reg_name)Martinique ***
## factor(ageClass)14.5:factor(reg_name)Mayotte ***
## factor(ageClass)24.5:factor(reg_name)Mayotte ***
## factor(ageClass)34.5:factor(reg_name)Mayotte ***
## factor(ageClass)44.5:factor(reg_name)Mayotte ***
## factor(ageClass)54.5:factor(reg_name)Mayotte ***
## factor(ageClass)64.5:factor(reg_name)Mayotte ***
## factor(ageClass)74.5:factor(reg_name)Mayotte ***
## factor(ageClass)84.5:factor(reg_name)Mayotte ***
## factor(ageClass)94.5:factor(reg_name)Mayotte
## factor(ageClass)14.5:factor(reg_name)Normandie ***
## factor(ageClass)24.5:factor(reg_name)Normandie ***
## factor(ageClass)34.5:factor(reg_name)Normandie ***
## factor(ageClass)44.5:factor(reg_name)Normandie ***
## factor(ageClass)54.5:factor(reg_name)Normandie ***
## factor(ageClass)64.5:factor(reg_name)Normandie ***
## factor(ageClass)74.5:factor(reg_name)Normandie ***
## factor(ageClass)84.5:factor(reg_name)Normandie ***
## factor(ageClass)94.5:factor(reg_name)Normandie ***
## factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine ***
## factor(ageClass)14.5:factor(reg_name)Occitanie ***
## factor(ageClass)24.5:factor(reg_name)Occitanie ***
## factor(ageClass)34.5:factor(reg_name)Occitanie ***
## factor(ageClass)44.5:factor(reg_name)Occitanie ***
## factor(ageClass)54.5:factor(reg_name)Occitanie ***
## factor(ageClass)64.5:factor(reg_name)Occitanie ***
## factor(ageClass)74.5:factor(reg_name)Occitanie ***
## factor(ageClass)84.5:factor(reg_name)Occitanie ***
## factor(ageClass)94.5:factor(reg_name)Occitanie ***
## factor(ageClass)14.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)24.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)34.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)44.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)54.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)64.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)74.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)84.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)94.5:factor(reg_name)Pays de la Loire ***
## factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)14.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)24.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)34.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)44.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)54.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)64.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)74.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)84.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)94.5:factor(reg_name)Bourgogne-Franche-Comté ***
## time:factor(ageClass)14.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)24.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)34.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)44.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)54.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)64.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)74.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)84.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)94.5:factor(reg_name)Bretagne ***
## time:factor(ageClass)14.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)24.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)34.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)44.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)54.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)64.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)74.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)84.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)94.5:factor(reg_name)Centre-Val de Loire ***
## time:factor(ageClass)14.5:factor(reg_name)Corse ***
## time:factor(ageClass)24.5:factor(reg_name)Corse ***
## time:factor(ageClass)34.5:factor(reg_name)Corse ***
## time:factor(ageClass)44.5:factor(reg_name)Corse ***
## time:factor(ageClass)54.5:factor(reg_name)Corse ***
## time:factor(ageClass)64.5:factor(reg_name)Corse ***
## time:factor(ageClass)74.5:factor(reg_name)Corse ***
## time:factor(ageClass)84.5:factor(reg_name)Corse ***
## time:factor(ageClass)94.5:factor(reg_name)Corse ***
## time:factor(ageClass)14.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)24.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)34.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)44.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)54.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)64.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)74.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)84.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)94.5:factor(reg_name)Grand Est ***
## time:factor(ageClass)14.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)24.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)34.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)44.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)54.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)64.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)74.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)84.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)94.5:factor(reg_name)Guadeloupe ***
## time:factor(ageClass)14.5:factor(reg_name)Guyane ***
## time:factor(ageClass)24.5:factor(reg_name)Guyane ***
## time:factor(ageClass)34.5:factor(reg_name)Guyane ***
## time:factor(ageClass)44.5:factor(reg_name)Guyane ***
## time:factor(ageClass)54.5:factor(reg_name)Guyane ***
## time:factor(ageClass)64.5:factor(reg_name)Guyane ***
## time:factor(ageClass)74.5:factor(reg_name)Guyane ***
## time:factor(ageClass)84.5:factor(reg_name)Guyane ***
## time:factor(ageClass)94.5:factor(reg_name)Guyane
## time:factor(ageClass)14.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)24.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)34.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)44.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)54.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)64.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)74.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)84.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)94.5:factor(reg_name)Hauts-de-France ***
## time:factor(ageClass)14.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)24.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)34.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)44.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)54.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)64.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)74.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)84.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)94.5:factor(reg_name)ÃŽle-de-France ***
## time:factor(ageClass)14.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)24.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)34.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)44.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)54.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)64.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)74.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)84.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)94.5:factor(reg_name)La Réunion ***
## time:factor(ageClass)14.5:factor(reg_name)Martinique ***
## time:factor(ageClass)24.5:factor(reg_name)Martinique ***
## time:factor(ageClass)34.5:factor(reg_name)Martinique ***
## time:factor(ageClass)44.5:factor(reg_name)Martinique ***
## time:factor(ageClass)54.5:factor(reg_name)Martinique ***
## time:factor(ageClass)64.5:factor(reg_name)Martinique ***
## time:factor(ageClass)74.5:factor(reg_name)Martinique ***
## time:factor(ageClass)84.5:factor(reg_name)Martinique ***
## time:factor(ageClass)94.5:factor(reg_name)Martinique ***
## time:factor(ageClass)14.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)24.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)34.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)44.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)54.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)64.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)74.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)84.5:factor(reg_name)Mayotte ***
## time:factor(ageClass)94.5:factor(reg_name)Mayotte
## time:factor(ageClass)14.5:factor(reg_name)Normandie ***
## time:factor(ageClass)24.5:factor(reg_name)Normandie ***
## time:factor(ageClass)34.5:factor(reg_name)Normandie ***
## time:factor(ageClass)44.5:factor(reg_name)Normandie ***
## time:factor(ageClass)54.5:factor(reg_name)Normandie ***
## time:factor(ageClass)64.5:factor(reg_name)Normandie ***
## time:factor(ageClass)74.5:factor(reg_name)Normandie ***
## time:factor(ageClass)84.5:factor(reg_name)Normandie ***
## time:factor(ageClass)94.5:factor(reg_name)Normandie ***
## time:factor(ageClass)14.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)24.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)34.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)44.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)54.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)64.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)74.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)84.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)94.5:factor(reg_name)Nouvelle-Aquitaine ***
## time:factor(ageClass)14.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)24.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)34.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)44.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)54.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)64.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)74.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)84.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)94.5:factor(reg_name)Occitanie ***
## time:factor(ageClass)14.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)24.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)34.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)44.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)54.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)64.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)74.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)84.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)94.5:factor(reg_name)Pays de la Loire ***
## time:factor(ageClass)14.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)24.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)34.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)44.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)54.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)64.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)74.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)84.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## time:factor(ageClass)94.5:factor(reg_name)Provence-Alpes-Côte d'Azur ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 288951 on 5615 degrees of freedom
## Residual deviance: 141785063 on 5260 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 141815363
##
## Number of Fisher Scoring iterations: 25# Without interaction
mdl1 <- glm(cbind(V1, notV1) ~ time*factor(reg_name) + factor(ageClass), data = dat.regions.ages, family = "binomial")
summary(mdl1)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time * factor(reg_name) + factor(ageClass),
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -7.9115 -0.8101 0.0000 0.9625 5.4951
##
## Coefficients:
## Estimate Std. Error z value
## (Intercept) -0.4235758 0.0084040 -50.402
## time 0.0603814 0.0003667 164.660
## factor(reg_name)Bourgogne-Franche-Comté -0.5075154 0.0140963 -36.004
## factor(reg_name)Bretagne 0.6758922 0.0149479 45.217
## factor(reg_name)Centre-Val de Loire 0.1660039 0.0147630 11.245
## factor(reg_name)Corse 1.2031818 0.0446575 26.942
## factor(reg_name)Grand Est -0.3657492 0.0106826 -34.238
## factor(reg_name)Guadeloupe 1.3681536 0.1091354 12.536
## factor(reg_name)Guyane -0.6996081 0.1696956 -4.123
## factor(reg_name)Hauts-de-France 0.6780981 0.0088819 76.346
## factor(reg_name)ÃŽle-de-France 0.6889399 0.0081516 84.516
## factor(reg_name)La Réunion -2.2693069 0.0644602 -35.205
## factor(reg_name)Martinique 0.2599656 0.0917059 2.835
## factor(reg_name)Mayotte -4.9159421 0.2981480 -16.488
## factor(reg_name)Normandie 0.1194172 0.0131337 9.092
## factor(reg_name)Nouvelle-Aquitaine 0.0198944 0.0123402 1.612
## factor(reg_name)Occitanie 0.4298178 0.0106224 40.463
## factor(reg_name)Pays de la Loire 0.0753950 0.0123736 6.093
## factor(reg_name)Provence-Alpes-Côte d'Azur 0.5151861 0.0093743 54.958
## factor(ageClass)14.5 0.0371522 0.0060150 6.177
## factor(ageClass)24.5 -0.0110265 0.0059302 -1.859
## factor(ageClass)34.5 0.0154638 0.0059464 2.601
## factor(ageClass)44.5 0.0298075 0.0059463 5.013
## factor(ageClass)54.5 -0.0450538 0.0060031 -7.505
## factor(ageClass)64.5 -0.1312018 0.0062934 -20.847
## factor(ageClass)74.5 -0.2889058 0.0068608 -42.110
## factor(ageClass)84.5 -0.5533838 0.0075334 -73.457
## factor(ageClass)94.5 -0.7094929 0.0097393 -72.848
## time:factor(reg_name)Bourgogne-Franche-Comté 0.0084092 0.0007535 11.160
## time:factor(reg_name)Bretagne -0.0153069 0.0008358 -18.315
## time:factor(reg_name)Centre-Val de Loire -0.0110001 0.0007796 -14.109
## time:factor(reg_name)Corse -0.0332383 0.0023704 -14.023
## time:factor(reg_name)Grand Est -0.0124541 0.0005563 -22.387
## time:factor(reg_name)Guadeloupe 0.0136434 0.0070045 1.948
## time:factor(reg_name)Guyane -0.0619699 0.0088932 -6.968
## time:factor(reg_name)Hauts-de-France -0.0228060 0.0004831 -47.208
## time:factor(reg_name)ÃŽle-de-France -0.0255475 0.0004391 -58.178
## time:factor(reg_name)La Réunion -0.0416583 0.0031811 -13.096
## time:factor(reg_name)Martinique 0.0305187 0.0049278 6.193
## time:factor(reg_name)Mayotte -0.0023713 0.0170594 -0.139
## time:factor(reg_name)Normandie -0.0013826 0.0007118 -1.942
## time:factor(reg_name)Nouvelle-Aquitaine -0.0013363 0.0006697 -1.995
## time:factor(reg_name)Occitanie -0.0156876 0.0005806 -27.019
## time:factor(reg_name)Pays de la Loire -0.0132352 0.0006671 -19.839
## time:factor(reg_name)Provence-Alpes-Côte d'Azur -0.0114027 0.0005311 -21.469
## Pr(>|z|)
## (Intercept) < 2e-16 ***
## time < 2e-16 ***
## factor(reg_name)Bourgogne-Franche-Comté < 2e-16 ***
## factor(reg_name)Bretagne < 2e-16 ***
## factor(reg_name)Centre-Val de Loire < 2e-16 ***
## factor(reg_name)Corse < 2e-16 ***
## factor(reg_name)Grand Est < 2e-16 ***
## factor(reg_name)Guadeloupe < 2e-16 ***
## factor(reg_name)Guyane 3.74e-05 ***
## factor(reg_name)Hauts-de-France < 2e-16 ***
## factor(reg_name)ÃŽle-de-France < 2e-16 ***
## factor(reg_name)La Réunion < 2e-16 ***
## factor(reg_name)Martinique 0.00459 **
## factor(reg_name)Mayotte < 2e-16 ***
## factor(reg_name)Normandie < 2e-16 ***
## factor(reg_name)Nouvelle-Aquitaine 0.10693
## factor(reg_name)Occitanie < 2e-16 ***
## factor(reg_name)Pays de la Loire 1.11e-09 ***
## factor(reg_name)Provence-Alpes-Côte d'Azur < 2e-16 ***
## factor(ageClass)14.5 6.55e-10 ***
## factor(ageClass)24.5 0.06298 .
## factor(ageClass)34.5 0.00931 **
## factor(ageClass)44.5 5.37e-07 ***
## factor(ageClass)54.5 6.14e-14 ***
## factor(ageClass)64.5 < 2e-16 ***
## factor(ageClass)74.5 < 2e-16 ***
## factor(ageClass)84.5 < 2e-16 ***
## factor(ageClass)94.5 < 2e-16 ***
## time:factor(reg_name)Bourgogne-Franche-Comté < 2e-16 ***
## time:factor(reg_name)Bretagne < 2e-16 ***
## time:factor(reg_name)Centre-Val de Loire < 2e-16 ***
## time:factor(reg_name)Corse < 2e-16 ***
## time:factor(reg_name)Grand Est < 2e-16 ***
## time:factor(reg_name)Guadeloupe 0.05144 .
## time:factor(reg_name)Guyane 3.21e-12 ***
## time:factor(reg_name)Hauts-de-France < 2e-16 ***
## time:factor(reg_name)ÃŽle-de-France < 2e-16 ***
## time:factor(reg_name)La Réunion < 2e-16 ***
## time:factor(reg_name)Martinique 5.90e-10 ***
## time:factor(reg_name)Mayotte 0.88945
## time:factor(reg_name)Normandie 0.05208 .
## time:factor(reg_name)Nouvelle-Aquitaine 0.04602 *
## time:factor(reg_name)Occitanie < 2e-16 ***
## time:factor(reg_name)Pays de la Loire < 2e-16 ***
## time:factor(reg_name)Provence-Alpes-Côte d'Azur < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 288951 on 5615 degrees of freedom
## Residual deviance: 14141 on 5571 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 43819
##
## Number of Fisher Scoring iterations: 6# Without interaction
mdl1bis <- glm(cbind(V1, notV1) ~ time*factor(ageClass) + factor(reg_name), data = dat.regions.ages, family = "binomial")
summary(mdl1bis)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time * factor(ageClass) + factor(reg_name),
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -11.159 -1.003 0.000 1.099 7.940
##
## Coefficients:
## Estimate Std. Error z value
## (Intercept) 0.0095931 0.0111185 0.863
## time 0.0341499 0.0005343 63.918
## factor(ageClass)14.5 -0.1389019 0.0123281 -11.267
## factor(ageClass)24.5 -0.1997682 0.0121467 -16.446
## factor(ageClass)34.5 -0.1641680 0.0121348 -13.529
## factor(ageClass)44.5 -0.1623150 0.0121189 -13.394
## factor(ageClass)54.5 -0.2662388 0.0122300 -21.769
## factor(ageClass)64.5 -0.3544569 0.0128234 -27.641
## factor(ageClass)74.5 -0.6057635 0.0139169 -43.527
## factor(ageClass)84.5 -0.9124917 0.0150447 -60.652
## factor(ageClass)94.5 -1.1126727 0.0186966 -59.512
## factor(reg_name)Bourgogne-Franche-Comté -0.3597439 0.0068314 -52.661
## factor(reg_name)Bretagne 0.4338904 0.0078195 55.489
## factor(reg_name)Centre-Val de Loire -0.0055348 0.0071953 -0.769
## factor(reg_name)Corse 0.6692988 0.0218671 30.608
## factor(reg_name)Grand Est -0.5616656 0.0051816 -108.396
## factor(reg_name)Guadeloupe 1.5283970 0.0555740 27.502
## factor(reg_name)Guyane -1.7654428 0.0873112 -20.220
## factor(reg_name)Hauts-de-France 0.3164385 0.0045224 69.971
## factor(reg_name)ÃŽle-de-France 0.2768701 0.0041080 67.397
## factor(reg_name)La Réunion -3.0193858 0.0277003 -109.002
## factor(reg_name)Martinique 0.8002132 0.0440325 18.173
## factor(reg_name)Mayotte -4.9667715 0.1499360 -33.126
## factor(reg_name)Normandie 0.1000879 0.0065041 15.388
## factor(reg_name)Nouvelle-Aquitaine 0.0013658 0.0062073 0.220
## factor(reg_name)Occitanie 0.1824179 0.0054870 33.246
## factor(reg_name)Pays de la Loire -0.1351189 0.0062711 -21.546
## factor(reg_name)Provence-Alpes-Côte d'Azur 0.3308846 0.0049203 67.249
## time:factor(ageClass)14.5 0.0101213 0.0006257 16.175
## time:factor(ageClass)24.5 0.0108507 0.0006184 17.547
## time:factor(ageClass)34.5 0.0102452 0.0006184 16.567
## time:factor(ageClass)44.5 0.0110759 0.0006186 17.906
## time:factor(ageClass)54.5 0.0128209 0.0006259 20.484
## time:factor(ageClass)64.5 0.0129894 0.0006580 19.741
## time:factor(ageClass)74.5 0.0189400 0.0007248 26.130
## time:factor(ageClass)84.5 0.0218128 0.0007957 27.412
## time:factor(ageClass)94.5 0.0252219 0.0010305 24.476
## Pr(>|z|)
## (Intercept) 0.388
## time <2e-16 ***
## factor(ageClass)14.5 <2e-16 ***
## factor(ageClass)24.5 <2e-16 ***
## factor(ageClass)34.5 <2e-16 ***
## factor(ageClass)44.5 <2e-16 ***
## factor(ageClass)54.5 <2e-16 ***
## factor(ageClass)64.5 <2e-16 ***
## factor(ageClass)74.5 <2e-16 ***
## factor(ageClass)84.5 <2e-16 ***
## factor(ageClass)94.5 <2e-16 ***
## factor(reg_name)Bourgogne-Franche-Comté <2e-16 ***
## factor(reg_name)Bretagne <2e-16 ***
## factor(reg_name)Centre-Val de Loire 0.442
## factor(reg_name)Corse <2e-16 ***
## factor(reg_name)Grand Est <2e-16 ***
## factor(reg_name)Guadeloupe <2e-16 ***
## factor(reg_name)Guyane <2e-16 ***
## factor(reg_name)Hauts-de-France <2e-16 ***
## factor(reg_name)ÃŽle-de-France <2e-16 ***
## factor(reg_name)La Réunion <2e-16 ***
## factor(reg_name)Martinique <2e-16 ***
## factor(reg_name)Mayotte <2e-16 ***
## factor(reg_name)Normandie <2e-16 ***
## factor(reg_name)Nouvelle-Aquitaine 0.826
## factor(reg_name)Occitanie <2e-16 ***
## factor(reg_name)Pays de la Loire <2e-16 ***
## factor(reg_name)Provence-Alpes-Côte d'Azur <2e-16 ***
## time:factor(ageClass)14.5 <2e-16 ***
## time:factor(ageClass)24.5 <2e-16 ***
## time:factor(ageClass)34.5 <2e-16 ***
## time:factor(ageClass)44.5 <2e-16 ***
## time:factor(ageClass)54.5 <2e-16 ***
## time:factor(ageClass)64.5 <2e-16 ***
## time:factor(ageClass)74.5 <2e-16 ***
## time:factor(ageClass)84.5 <2e-16 ***
## time:factor(ageClass)94.5 <2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 288951 on 5615 degrees of freedom
## Residual deviance: 19875 on 5579 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 49538
##
## Number of Fisher Scoring iterations: 6# Without interaction at all
mdl2 <- glm(cbind(V1, notV1) ~ time + factor(ageClass) + factor(reg_name), data = dat.regions.ages, family = "binomial")
summary(mdl2)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time + factor(ageClass) + factor(reg_name),
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -11.6253 -0.9642 0.0000 1.1369 8.6257
##
## Coefficients:
## Estimate Std. Error z value
## (Intercept) -0.1970675 0.0063985 -30.799
## time 0.0460207 0.0001213 379.454
## factor(ageClass)14.5 0.0384698 0.0060096 6.401
## factor(ageClass)24.5 -0.0100744 0.0059258 -1.700
## factor(ageClass)34.5 0.0160130 0.0059421 2.695
## factor(ageClass)44.5 0.0312501 0.0059415 5.260
## factor(ageClass)54.5 -0.0450709 0.0059977 -7.515
## factor(ageClass)64.5 -0.1303907 0.0062874 -20.738
## factor(ageClass)74.5 -0.2880828 0.0068515 -42.047
## factor(ageClass)84.5 -0.5534251 0.0075219 -73.575
## factor(ageClass)94.5 -0.7113557 0.0097184 -73.197
## factor(reg_name)Bourgogne-Franche-Comté -0.3601374 0.0068289 -52.737
## factor(reg_name)Bretagne 0.4343518 0.0078163 55.570
## factor(reg_name)Centre-Val de Loire -0.0048618 0.0071912 -0.676
## factor(reg_name)Corse 0.6717852 0.0218536 30.740
## factor(reg_name)Grand Est -0.5595509 0.0051813 -107.995
## factor(reg_name)Guadeloupe 1.5340050 0.0555606 27.610
## factor(reg_name)Guyane -1.7650271 0.0873644 -20.203
## factor(reg_name)Hauts-de-France 0.3174071 0.0045210 70.207
## factor(reg_name)ÃŽle-de-France 0.2771086 0.0041073 67.467
## factor(reg_name)La Réunion -3.0201814 0.0277087 -108.998
## factor(reg_name)Martinique 0.7979783 0.0439979 18.137
## factor(reg_name)Mayotte -4.9675387 0.1499308 -33.132
## factor(reg_name)Normandie 0.1024369 0.0065013 15.756
## factor(reg_name)Nouvelle-Aquitaine 0.0015595 0.0062053 0.251
## factor(reg_name)Occitanie 0.1819404 0.0054834 33.180
## factor(reg_name)Pays de la Loire -0.1337211 0.0062690 -21.330
## factor(reg_name)Provence-Alpes-Côte d'Azur 0.3304583 0.0049167 67.211
## Pr(>|z|)
## (Intercept) < 2e-16 ***
## time < 2e-16 ***
## factor(ageClass)14.5 1.54e-10 ***
## factor(ageClass)24.5 0.08911 .
## factor(ageClass)34.5 0.00704 **
## factor(ageClass)44.5 1.44e-07 ***
## factor(ageClass)54.5 5.70e-14 ***
## factor(ageClass)64.5 < 2e-16 ***
## factor(ageClass)74.5 < 2e-16 ***
## factor(ageClass)84.5 < 2e-16 ***
## factor(ageClass)94.5 < 2e-16 ***
## factor(reg_name)Bourgogne-Franche-Comté < 2e-16 ***
## factor(reg_name)Bretagne < 2e-16 ***
## factor(reg_name)Centre-Val de Loire 0.49899
## factor(reg_name)Corse < 2e-16 ***
## factor(reg_name)Grand Est < 2e-16 ***
## factor(reg_name)Guadeloupe < 2e-16 ***
## factor(reg_name)Guyane < 2e-16 ***
## factor(reg_name)Hauts-de-France < 2e-16 ***
## factor(reg_name)ÃŽle-de-France < 2e-16 ***
## factor(reg_name)La Réunion < 2e-16 ***
## factor(reg_name)Martinique < 2e-16 ***
## factor(reg_name)Mayotte < 2e-16 ***
## factor(reg_name)Normandie < 2e-16 ***
## factor(reg_name)Nouvelle-Aquitaine 0.80157
## factor(reg_name)Occitanie < 2e-16 ***
## factor(reg_name)Pays de la Loire < 2e-16 ***
## factor(reg_name)Provence-Alpes-Côte d'Azur < 2e-16 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 288951 on 5615 degrees of freedom
## Residual deviance: 21187 on 5588 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 50831
##
## Number of Fisher Scoring iterations: 6## Likelihood ratio tests
anova(mdl1, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1) ~ time * factor(reg_name) + factor(ageClass)
## Model 2: cbind(V1, notV1) ~ time * factor(ageClass) * factor(reg_name)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 5571 14141
## 2 5260 141785063 311 -141770922anova(mdl1bis, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1) ~ time * factor(ageClass) + factor(reg_name)
## Model 2: cbind(V1, notV1) ~ time * factor(ageClass) * factor(reg_name)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 5579 19875
## 2 5260 141785063 319 -141765187anova(mdl2, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1) ~ time + factor(ageClass) + factor(reg_name)
## Model 2: cbind(V1, notV1) ~ time * factor(ageClass) * factor(reg_name)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 5588 21187
## 2 5260 141785063 328 -141763876- Age as quantitative
mdl3 <- glm(cbind(V1, notV1) ~ time * ageClass * factor(reg_name), data = dat.regions.ages, family = "binomial")
summary(mdl3)##
## Call:
## glm(formula = cbind(V1, notV1) ~ time * ageClass * factor(reg_name),
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -9.8299 -1.1686 -0.0532 0.8732 7.2128
##
## Coefficients:
## Estimate Std. Error
## (Intercept) -5.257e-02 1.427e-02
## time 5.294e-02 7.766e-04
## ageClass -1.042e-02 2.986e-04
## factor(reg_name)Bourgogne-Franche-Comté -5.778e-01 3.016e-02
## factor(reg_name)Bretagne 5.056e-01 3.101e-02
## factor(reg_name)Centre-Val de Loire 1.574e-01 3.199e-02
## factor(reg_name)Corse 5.247e-01 1.037e-01
## factor(reg_name)Grand Est -5.961e-01 2.237e-02
## factor(reg_name)Guadeloupe 1.406e+00 2.883e-01
## factor(reg_name)Guyane -2.208e+00 4.160e-01
## factor(reg_name)Hauts-de-France 5.312e-01 1.894e-02
## factor(reg_name)ÃŽle-de-France 5.966e-01 1.756e-02
## factor(reg_name)La Réunion -2.961e+00 1.448e-01
## factor(reg_name)Martinique 4.122e-01 2.264e-01
## factor(reg_name)Mayotte -1.349e+01 2.878e+00
## factor(reg_name)Normandie -3.678e-02 2.820e-02
## factor(reg_name)Nouvelle-Aquitaine 1.587e-01 2.634e-02
## factor(reg_name)Occitanie 4.511e-01 2.281e-02
## factor(reg_name)Pays de la Loire -1.184e-01 2.592e-02
## factor(reg_name)Provence-Alpes-Côte d'Azur 5.485e-01 2.047e-02
## time:ageClass 1.794e-04 1.654e-05
## time:factor(reg_name)Bourgogne-Franche-Comté 9.943e-03 1.592e-03
## time:factor(reg_name)Bretagne -1.383e-02 1.731e-03
## time:factor(reg_name)Centre-Val de Loire -1.326e-02 1.677e-03
## time:factor(reg_name)Corse -1.125e-02 5.381e-03
## time:factor(reg_name)Grand Est -7.040e-03 1.163e-03
## time:factor(reg_name)Guadeloupe 2.025e-02 1.895e-02
## time:factor(reg_name)Guyane -3.694e-02 2.322e-02
## time:factor(reg_name)Hauts-de-France -2.161e-02 1.021e-03
## time:factor(reg_name)ÃŽle-de-France -2.692e-02 9.384e-04
## time:factor(reg_name)La Réunion -1.907e-02 7.081e-03
## time:factor(reg_name)Martinique 4.078e-02 1.294e-02
## time:factor(reg_name)Mayotte 4.414e-01 1.077e-01
## time:factor(reg_name)Normandie 7.080e-03 1.529e-03
## time:factor(reg_name)Nouvelle-Aquitaine -3.697e-05 1.425e-03
## time:factor(reg_name)Occitanie -2.350e-02 1.232e-03
## time:factor(reg_name)Pays de la Loire -1.048e-02 1.389e-03
## time:factor(reg_name)Provence-Alpes-Côte d'Azur -1.666e-02 1.152e-03
## ageClass:factor(reg_name)Bourgogne-Franche-Comté 1.777e-03 6.136e-04
## ageClass:factor(reg_name)Bretagne 3.767e-03 6.596e-04
## ageClass:factor(reg_name)Centre-Val de Loire 3.466e-04 6.376e-04
## ageClass:factor(reg_name)Corse 1.533e-02 2.062e-03
## ageClass:factor(reg_name)Grand Est 5.496e-03 4.728e-04
## ageClass:factor(reg_name)Guadeloupe -8.014e-05 5.919e-03
## ageClass:factor(reg_name)Guyane 4.193e-02 9.766e-03
## ageClass:factor(reg_name)Hauts-de-France 3.528e-03 3.968e-04
## ageClass:factor(reg_name)ÃŽle-de-France 2.305e-03 3.713e-04
## ageClass:factor(reg_name)La Réunion 1.844e-02 3.358e-03
## ageClass:factor(reg_name)Martinique -2.751e-03 4.420e-03
## ageClass:factor(reg_name)Mayotte 1.443e-01 4.488e-02
## ageClass:factor(reg_name)Normandie 3.815e-03 5.783e-04
## ageClass:factor(reg_name)Nouvelle-Aquitaine -3.209e-03 5.476e-04
## ageClass:factor(reg_name)Occitanie -4.197e-04 4.621e-04
## ageClass:factor(reg_name)Pays de la Loire 4.504e-03 5.392e-04
## ageClass:factor(reg_name)Provence-Alpes-Côte d'Azur -4.202e-04 4.155e-04
## time:ageClass:factor(reg_name)Bourgogne-Franche-Comté -4.360e-05 3.305e-05
## time:ageClass:factor(reg_name)Bretagne -1.630e-05 3.796e-05
## time:ageClass:factor(reg_name)Centre-Val de Loire 4.602e-05 3.422e-05
## time:ageClass:factor(reg_name)Corse -5.104e-04 1.062e-04
## time:ageClass:factor(reg_name)Grand Est -1.308e-04 2.476e-05
## time:ageClass:factor(reg_name)Guadeloupe -1.498e-04 3.644e-04
## time:ageClass:factor(reg_name)Guyane -7.201e-04 5.384e-04
## time:ageClass:factor(reg_name)Hauts-de-France -2.795e-05 2.179e-05
## time:ageClass:factor(reg_name)ÃŽle-de-France 4.262e-05 2.022e-05
## time:ageClass:factor(reg_name)La Réunion -5.896e-04 1.651e-04
## time:ageClass:factor(reg_name)Martinique -2.271e-04 2.595e-04
## time:ageClass:factor(reg_name)Mayotte -7.721e-03 1.736e-03
## time:ageClass:factor(reg_name)Normandie -2.060e-04 3.140e-05
## time:ageClass:factor(reg_name)Nouvelle-Aquitaine -3.954e-05 2.987e-05
## time:ageClass:factor(reg_name)Occitanie 1.793e-04 2.561e-05
## time:ageClass:factor(reg_name)Pays de la Loire -6.554e-05 2.929e-05
## time:ageClass:factor(reg_name)Provence-Alpes-Côte d'Azur 1.097e-04 2.385e-05
## z value Pr(>|z|)
## (Intercept) -3.683 0.000231 ***
## time 68.165 < 2e-16 ***
## ageClass -34.908 < 2e-16 ***
## factor(reg_name)Bourgogne-Franche-Comté -19.160 < 2e-16 ***
## factor(reg_name)Bretagne 16.302 < 2e-16 ***
## factor(reg_name)Centre-Val de Loire 4.919 8.72e-07 ***
## factor(reg_name)Corse 5.060 4.20e-07 ***
## factor(reg_name)Grand Est -26.654 < 2e-16 ***
## factor(reg_name)Guadeloupe 4.878 1.07e-06 ***
## factor(reg_name)Guyane -5.307 1.11e-07 ***
## factor(reg_name)Hauts-de-France 28.042 < 2e-16 ***
## factor(reg_name)ÃŽle-de-France 33.986 < 2e-16 ***
## factor(reg_name)La Réunion -20.456 < 2e-16 ***
## factor(reg_name)Martinique 1.821 0.068602 .
## factor(reg_name)Mayotte -4.686 2.79e-06 ***
## factor(reg_name)Normandie -1.304 0.192129
## factor(reg_name)Nouvelle-Aquitaine 6.025 1.69e-09 ***
## factor(reg_name)Occitanie 19.779 < 2e-16 ***
## factor(reg_name)Pays de la Loire -4.568 4.92e-06 ***
## factor(reg_name)Provence-Alpes-Côte d'Azur 26.798 < 2e-16 ***
## time:ageClass 10.843 < 2e-16 ***
## time:factor(reg_name)Bourgogne-Franche-Comté 6.246 4.20e-10 ***
## time:factor(reg_name)Bretagne -7.990 1.35e-15 ***
## time:factor(reg_name)Centre-Val de Loire -7.908 2.61e-15 ***
## time:factor(reg_name)Corse -2.090 0.036589 *
## time:factor(reg_name)Grand Est -6.056 1.40e-09 ***
## time:factor(reg_name)Guadeloupe 1.068 0.285330
## time:factor(reg_name)Guyane -1.591 0.111658
## time:factor(reg_name)Hauts-de-France -21.161 < 2e-16 ***
## time:factor(reg_name)ÃŽle-de-France -28.686 < 2e-16 ***
## time:factor(reg_name)La Réunion -2.693 0.007071 **
## time:factor(reg_name)Martinique 3.152 0.001622 **
## time:factor(reg_name)Mayotte 4.098 4.16e-05 ***
## time:factor(reg_name)Normandie 4.630 3.65e-06 ***
## time:factor(reg_name)Nouvelle-Aquitaine -0.026 0.979300
## time:factor(reg_name)Occitanie -19.075 < 2e-16 ***
## time:factor(reg_name)Pays de la Loire -7.545 4.53e-14 ***
## time:factor(reg_name)Provence-Alpes-Côte d'Azur -14.465 < 2e-16 ***
## ageClass:factor(reg_name)Bourgogne-Franche-Comté 2.895 0.003789 **
## ageClass:factor(reg_name)Bretagne 5.711 1.12e-08 ***
## ageClass:factor(reg_name)Centre-Val de Loire 0.544 0.586649
## ageClass:factor(reg_name)Corse 7.436 1.04e-13 ***
## ageClass:factor(reg_name)Grand Est 11.626 < 2e-16 ***
## ageClass:factor(reg_name)Guadeloupe -0.014 0.989197
## ageClass:factor(reg_name)Guyane 4.294 1.76e-05 ***
## ageClass:factor(reg_name)Hauts-de-France 8.891 < 2e-16 ***
## ageClass:factor(reg_name)ÃŽle-de-France 6.208 5.36e-10 ***
## ageClass:factor(reg_name)La Réunion 5.490 4.03e-08 ***
## ageClass:factor(reg_name)Martinique -0.622 0.533738
## ageClass:factor(reg_name)Mayotte 3.214 0.001308 **
## ageClass:factor(reg_name)Normandie 6.598 4.17e-11 ***
## ageClass:factor(reg_name)Nouvelle-Aquitaine -5.861 4.60e-09 ***
## ageClass:factor(reg_name)Occitanie -0.908 0.363793
## ageClass:factor(reg_name)Pays de la Loire 8.354 < 2e-16 ***
## ageClass:factor(reg_name)Provence-Alpes-Côte d'Azur -1.011 0.311868
## time:ageClass:factor(reg_name)Bourgogne-Franche-Comté -1.319 0.187093
## time:ageClass:factor(reg_name)Bretagne -0.429 0.667669
## time:ageClass:factor(reg_name)Centre-Val de Loire 1.345 0.178725
## time:ageClass:factor(reg_name)Corse -4.804 1.56e-06 ***
## time:ageClass:factor(reg_name)Grand Est -5.281 1.28e-07 ***
## time:ageClass:factor(reg_name)Guadeloupe -0.411 0.680991
## time:ageClass:factor(reg_name)Guyane -1.338 0.181047
## time:ageClass:factor(reg_name)Hauts-de-France -1.283 0.199518
## time:ageClass:factor(reg_name)ÃŽle-de-France 2.108 0.035022 *
## time:ageClass:factor(reg_name)La Réunion -3.572 0.000354 ***
## time:ageClass:factor(reg_name)Martinique -0.875 0.381451
## time:ageClass:factor(reg_name)Mayotte -4.447 8.70e-06 ***
## time:ageClass:factor(reg_name)Normandie -6.560 5.39e-11 ***
## time:ageClass:factor(reg_name)Nouvelle-Aquitaine -1.323 0.185696
## time:ageClass:factor(reg_name)Occitanie 7.004 2.49e-12 ***
## time:ageClass:factor(reg_name)Pays de la Loire -2.237 0.025269 *
## time:ageClass:factor(reg_name)Provence-Alpes-Côte d'Azur 4.599 4.24e-06 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 288951 on 5615 degrees of freedom
## Residual deviance: 19332 on 5544 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 49065
##
## Number of Fisher Scoring iterations: 7## Likelihood ratio test
anova(mdl3, mdl0, test="Chisq")## Analysis of Deviance Table
##
## Model 1: cbind(V1, notV1) ~ time * ageClass * factor(reg_name)
## Model 2: cbind(V1, notV1) ~ time * factor(ageClass) * factor(reg_name)
## Resid. Df Resid. Dev Df Deviance Pr(>Chi)
## 1 5544 19332
## 2 5260 141785063 284 -141765730# GLM
# Assuming that all IND (indetermine) are non-V1
mdl <- glm(cbind(V1, notV1) ~ date2 * as.factor(ageClass) + reg_name.fac, data = dat.regions.ages, family = "binomial")
summary(mdl)##
## Call:
## glm(formula = cbind(V1, notV1) ~ date2 * as.factor(ageClass) +
## reg_name.fac, family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -11.159 -1.003 0.000 1.099 7.940
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -6.378e+02 9.988e+00 -63.857 <2e-16
## date2 3.415e-02 5.343e-04 63.918 <2e-16
## as.factor(ageClass)14.5 -1.892e+02 1.170e+01 -16.172 <2e-16
## as.factor(ageClass)24.5 -2.028e+02 1.156e+01 -17.548 <2e-16
## as.factor(ageClass)34.5 -1.915e+02 1.156e+01 -16.566 <2e-16
## as.factor(ageClass)44.5 -2.070e+02 1.156e+01 -17.904 <2e-16
## as.factor(ageClass)54.5 -2.397e+02 1.170e+01 -20.488 <2e-16
## as.factor(ageClass)64.5 -2.429e+02 1.230e+01 -19.752 <2e-16
## as.factor(ageClass)74.5 -3.543e+02 1.355e+01 -26.151 <2e-16
## as.factor(ageClass)84.5 -4.083e+02 1.487e+01 -27.450 <2e-16
## as.factor(ageClass)94.5 -4.722e+02 1.926e+01 -24.513 <2e-16
## reg_name.facBourgogne-Franche-Comté -3.597e-01 6.831e-03 -52.661 <2e-16
## reg_name.facBretagne 4.339e-01 7.820e-03 55.489 <2e-16
## reg_name.facCentre-Val de Loire -5.535e-03 7.195e-03 -0.769 0.442
## reg_name.facCorse 6.693e-01 2.187e-02 30.608 <2e-16
## reg_name.facGrand Est -5.617e-01 5.182e-03 -108.396 <2e-16
## reg_name.facGuadeloupe 1.528e+00 5.557e-02 27.502 <2e-16
## reg_name.facGuyane -1.765e+00 8.731e-02 -20.220 <2e-16
## reg_name.facHauts-de-France 3.164e-01 4.522e-03 69.971 <2e-16
## reg_name.facÃŽle-de-France 2.769e-01 4.108e-03 67.397 <2e-16
## reg_name.facLa Réunion -3.019e+00 2.770e-02 -109.002 <2e-16
## reg_name.facMartinique 8.002e-01 4.403e-02 18.173 <2e-16
## reg_name.facMayotte -4.967e+00 1.499e-01 -33.126 <2e-16
## reg_name.facNormandie 1.001e-01 6.504e-03 15.388 <2e-16
## reg_name.facNouvelle-Aquitaine 1.366e-03 6.207e-03 0.220 0.826
## reg_name.facOccitanie 1.824e-01 5.487e-03 33.246 <2e-16
## reg_name.facPays de la Loire -1.351e-01 6.271e-03 -21.546 <2e-16
## reg_name.facProvence-Alpes-Côte d'Azur 3.309e-01 4.920e-03 67.249 <2e-16
## date2:as.factor(ageClass)14.5 1.012e-02 6.257e-04 16.175 <2e-16
## date2:as.factor(ageClass)24.5 1.085e-02 6.184e-04 17.547 <2e-16
## date2:as.factor(ageClass)34.5 1.025e-02 6.184e-04 16.567 <2e-16
## date2:as.factor(ageClass)44.5 1.108e-02 6.186e-04 17.906 <2e-16
## date2:as.factor(ageClass)54.5 1.282e-02 6.259e-04 20.484 <2e-16
## date2:as.factor(ageClass)64.5 1.299e-02 6.580e-04 19.741 <2e-16
## date2:as.factor(ageClass)74.5 1.894e-02 7.248e-04 26.130 <2e-16
## date2:as.factor(ageClass)84.5 2.181e-02 7.957e-04 27.412 <2e-16
## date2:as.factor(ageClass)94.5 2.522e-02 1.030e-03 24.476 <2e-16
##
## (Intercept) ***
## date2 ***
## as.factor(ageClass)14.5 ***
## as.factor(ageClass)24.5 ***
## as.factor(ageClass)34.5 ***
## as.factor(ageClass)44.5 ***
## as.factor(ageClass)54.5 ***
## as.factor(ageClass)64.5 ***
## as.factor(ageClass)74.5 ***
## as.factor(ageClass)84.5 ***
## as.factor(ageClass)94.5 ***
## reg_name.facBourgogne-Franche-Comté ***
## reg_name.facBretagne ***
## reg_name.facCentre-Val de Loire
## reg_name.facCorse ***
## reg_name.facGrand Est ***
## reg_name.facGuadeloupe ***
## reg_name.facGuyane ***
## reg_name.facHauts-de-France ***
## reg_name.facÃŽle-de-France ***
## reg_name.facLa Réunion ***
## reg_name.facMartinique ***
## reg_name.facMayotte ***
## reg_name.facNormandie ***
## reg_name.facNouvelle-Aquitaine
## reg_name.facOccitanie ***
## reg_name.facPays de la Loire ***
## reg_name.facProvence-Alpes-Côte d'Azur ***
## date2:as.factor(ageClass)14.5 ***
## date2:as.factor(ageClass)24.5 ***
## date2:as.factor(ageClass)34.5 ***
## date2:as.factor(ageClass)44.5 ***
## date2:as.factor(ageClass)54.5 ***
## date2:as.factor(ageClass)64.5 ***
## date2:as.factor(ageClass)74.5 ***
## date2:as.factor(ageClass)84.5 ***
## date2:as.factor(ageClass)94.5 ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 288951 on 5615 degrees of freedom
## Residual deviance: 19875 on 5579 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 49538
##
## Number of Fisher Scoring iterations: 6# Ignoring IND
mdl.narm <- glm(cbind(V1, notV1.narm) ~ date2 + cl_age90 + reg_name.fac, data = dat.regions.ages, family = "binomial")
summary(mdl.narm)##
## Call:
## glm(formula = cbind(V1, notV1.narm) ~ date2 + cl_age90 + reg_name.fac,
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -9.996 -1.176 0.000 1.044 8.784
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) -1.075e+03 2.559e+00 -420.163 < 2e-16
## date2 5.759e-02 1.369e-04 420.552 < 2e-16
## cl_age90 -6.847e-03 5.856e-05 -116.919 < 2e-16
## reg_name.facBourgogne-Franche-Comté -4.610e-01 7.204e-03 -63.996 < 2e-16
## reg_name.facBretagne 4.689e-01 8.554e-03 54.825 < 2e-16
## reg_name.facCentre-Val de Loire 1.599e-01 8.092e-03 19.758 < 2e-16
## reg_name.facCorse 1.443e+00 3.216e-02 44.886 < 2e-16
## reg_name.facGrand Est -6.088e-01 5.544e-03 -109.824 < 2e-16
## reg_name.facGuadeloupe 1.621e+00 6.240e-02 25.985 < 2e-16
## reg_name.facGuyane -1.735e+00 9.077e-02 -19.112 < 2e-16
## reg_name.facHauts-de-France 4.397e-01 4.981e-03 88.273 < 2e-16
## reg_name.facÃŽle-de-France 5.284e-01 4.568e-03 115.669 < 2e-16
## reg_name.facLa Réunion -2.981e+00 2.827e-02 -105.454 < 2e-16
## reg_name.facMartinique 7.193e-01 4.692e-02 15.330 < 2e-16
## reg_name.facMayotte -4.879e+00 1.501e-01 -32.511 < 2e-16
## reg_name.facNormandie 1.815e-01 7.176e-03 25.294 < 2e-16
## reg_name.facNouvelle-Aquitaine -4.204e-02 6.655e-03 -6.317 2.66e-10
## reg_name.facOccitanie 2.477e-01 6.004e-03 41.253 < 2e-16
## reg_name.facPays de la Loire -1.991e-01 6.677e-03 -29.814 < 2e-16
## reg_name.facProvence-Alpes-Côte d'Azur 4.827e-01 5.444e-03 88.667 < 2e-16
##
## (Intercept) ***
## date2 ***
## cl_age90 ***
## reg_name.facBourgogne-Franche-Comté ***
## reg_name.facBretagne ***
## reg_name.facCentre-Val de Loire ***
## reg_name.facCorse ***
## reg_name.facGrand Est ***
## reg_name.facGuadeloupe ***
## reg_name.facGuyane ***
## reg_name.facHauts-de-France ***
## reg_name.facÃŽle-de-France ***
## reg_name.facLa Réunion ***
## reg_name.facMartinique ***
## reg_name.facMayotte ***
## reg_name.facNormandie ***
## reg_name.facNouvelle-Aquitaine ***
## reg_name.facOccitanie ***
## reg_name.facPays de la Loire ***
## reg_name.facProvence-Alpes-Côte d'Azur ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 346463 on 5587 degrees of freedom
## Residual deviance: 22471 on 5568 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 50855
##
## Number of Fisher Scoring iterations: 5V2
par(mfrow = c(4, 3))
for(region in tmp){
subdat <- dat.regions[dat.regions$reg == region, ]
plot(subdat$date2, subdat$Prc_susp_501Y_V2_3, ylim = c(0, 100), main = regs[as.character(region)], col = colsAge[as.character(subdat$cl_age90)], pch = pchAge[as.character(subdat$cl_age90)],
xlab = "date", ylab = "Proportion V2/V3"
)
}
# Create new colums with information on number of specific PCR tests
# PCR with V2/3 result
dat.regions.ages$V23 <- dat.regions.ages$Nb_susp_501Y_V2_3
# All other PCRs (considering NAs are non-V1)
dat.regions.ages$notV23 <- dat.regions.ages$Nb_tests_PCR_TA_crible - dat.regions.ages$Nb_susp_501Y_V2_3
# All other PCRs with a result (removing NAs)
dat.regions.ages$notV23.narm <- dat.regions.ages$Nb_susp_501Y_V1 + dat.regions.ages$Nb_susp_ABS
# GLM
# Assuming that all IND (indetermine) are non-V23
mdl <- glm(cbind(V23, notV23) ~ date2 + ageClass + reg_name.fac, data = dat.regions.ages, family = "binomial")
summary(mdl)##
## Call:
## glm(formula = cbind(V23, notV23) ~ date2 + ageClass + reg_name.fac,
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -5.4007 -1.0289 -0.2699 0.6114 6.7974
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 23.4717481 4.9170938 4.774 1.81e-06
## date2 -0.0014301 0.0002630 -5.437 5.42e-08
## ageClass -0.0013009 0.0001147 -11.346 < 2e-16
## reg_name.facBourgogne-Franche-Comté 0.3639366 0.0158366 22.981 < 2e-16
## reg_name.facBretagne 0.1281256 0.0181289 7.067 1.58e-12
## reg_name.facCentre-Val de Loire -0.6594859 0.0238790 -27.618 < 2e-16
## reg_name.facCorse -1.1019891 0.0839998 -13.119 < 2e-16
## reg_name.facGrand Est 1.7981701 0.0100361 179.170 < 2e-16
## reg_name.facGuadeloupe -1.7038434 0.2191094 -7.776 7.47e-15
## reg_name.facGuyane 1.8345173 0.0944560 19.422 < 2e-16
## reg_name.facHauts-de-France -0.5487490 0.0128584 -42.676 < 2e-16
## reg_name.facÃŽle-de-France 0.3461739 0.0099607 34.754 < 2e-16
## reg_name.facLa Réunion 2.9579021 0.0177259 166.869 < 2e-16
## reg_name.facMartinique -1.0790098 0.1554956 -6.939 3.94e-12
## reg_name.facMayotte 3.2315205 0.0298375 108.304 < 2e-16
## reg_name.facNormandie -0.2163590 0.0178337 -12.132 < 2e-16
## reg_name.facNouvelle-Aquitaine -0.0853504 0.0163646 -5.216 1.83e-07
## reg_name.facOccitanie -0.8727692 0.0185356 -47.086 < 2e-16
## reg_name.facPays de la Loire 0.7113735 0.0132372 53.740 < 2e-16
## reg_name.facProvence-Alpes-Côte d'Azur -0.1550956 0.0128523 -12.068 < 2e-16
##
## (Intercept) ***
## date2 ***
## ageClass ***
## reg_name.facBourgogne-Franche-Comté ***
## reg_name.facBretagne ***
## reg_name.facCentre-Val de Loire ***
## reg_name.facCorse ***
## reg_name.facGrand Est ***
## reg_name.facGuadeloupe ***
## reg_name.facGuyane ***
## reg_name.facHauts-de-France ***
## reg_name.facÃŽle-de-France ***
## reg_name.facLa Réunion ***
## reg_name.facMartinique ***
## reg_name.facMayotte ***
## reg_name.facNormandie ***
## reg_name.facNouvelle-Aquitaine ***
## reg_name.facOccitanie ***
## reg_name.facPays de la Loire ***
## reg_name.facProvence-Alpes-Côte d'Azur ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 138227 on 5615 degrees of freedom
## Residual deviance: 13268 on 5596 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 33986
##
## Number of Fisher Scoring iterations: 6# Ignoring IND
mdl.narm <- glm(cbind(V23, notV23.narm) ~ date2 + ageClass + reg_name.fac, data = dat.regions.ages, family = "binomial")
summary(mdl.narm)##
## Call:
## glm(formula = cbind(V23, notV23.narm) ~ date2 + ageClass + reg_name.fac,
## family = "binomial", data = dat.regions.ages)
##
## Deviance Residuals:
## Min 1Q Median 3Q Max
## -5.3768 -1.0007 -0.2419 0.6658 6.6382
##
## Coefficients:
## Estimate Std. Error z value Pr(>|z|)
## (Intercept) 16.369676 4.954720 3.304 0.000954
## date2 -0.001046 0.000265 -3.947 7.90e-05
## ageClass -0.001245 0.000116 -10.736 < 2e-16
## reg_name.facBourgogne-Franche-Comté 0.346632 0.015859 21.857 < 2e-16
## reg_name.facBretagne 0.117749 0.018153 6.486 8.79e-11
## reg_name.facCentre-Val de Loire -0.610236 0.023909 -25.524 < 2e-16
## reg_name.facCorse -1.015450 0.084088 -12.076 < 2e-16
## reg_name.facGrand Est 1.832617 0.010072 181.946 < 2e-16
## reg_name.facGuadeloupe -1.752689 0.219129 -7.998 1.26e-15
## reg_name.facGuyane 1.946893 0.096250 20.227 < 2e-16
## reg_name.facHauts-de-France -0.533992 0.012873 -41.481 < 2e-16
## reg_name.facÃŽle-de-France 0.393133 0.009979 39.396 < 2e-16
## reg_name.facLa Réunion 3.327353 0.019220 173.122 < 2e-16
## reg_name.facMartinique -1.129468 0.155522 -7.262 3.80e-13
## reg_name.facMayotte 3.474145 0.032166 108.005 < 2e-16
## reg_name.facNormandie -0.195090 0.017860 -10.924 < 2e-16
## reg_name.facNouvelle-Aquitaine -0.095232 0.016384 -5.813 6.15e-09
## reg_name.facOccitanie -0.862923 0.018551 -46.517 < 2e-16
## reg_name.facPays de la Loire 0.701614 0.013262 52.902 < 2e-16
## reg_name.facProvence-Alpes-Côte d'Azur -0.131642 0.012870 -10.228 < 2e-16
##
## (Intercept) ***
## date2 ***
## ageClass ***
## reg_name.facBourgogne-Franche-Comté ***
## reg_name.facBretagne ***
## reg_name.facCentre-Val de Loire ***
## reg_name.facCorse ***
## reg_name.facGrand Est ***
## reg_name.facGuadeloupe ***
## reg_name.facGuyane ***
## reg_name.facHauts-de-France ***
## reg_name.facÃŽle-de-France ***
## reg_name.facLa Réunion ***
## reg_name.facMartinique ***
## reg_name.facMayotte ***
## reg_name.facNormandie ***
## reg_name.facNouvelle-Aquitaine ***
## reg_name.facOccitanie ***
## reg_name.facPays de la Loire ***
## reg_name.facProvence-Alpes-Côte d'Azur ***
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
##
## (Dispersion parameter for binomial family taken to be 1)
##
## Null deviance: 142356 on 5587 degrees of freedom
## Residual deviance: 13189 on 5568 degrees of freedom
## (990 observations deleted due to missingness)
## AIC: 33732
##
## Number of Fisher Scoring iterations: 6All
par(mfrow = c(4, 3))
tmp <- unique(dat.regions$reg) # Region codes
tmp <- tmp[tmp>10 & tmp <= 93] # Choose only metropolitan regions
for(region in tmp){
subdat <- dat.regions[dat.regions$reg == region, ]
cc <- getVec(subdat[subdat$cl_age90 == 0, ], prop = FALSE)
plotDist(cc$x, cc$cA, cc$cB, cc$cC, cc$cD)
title(main = regs[as.character(region)])
}
Départements
URL <- "https://www.data.gouv.fr/fr/datasets/r/16f4fd03-797f-4616-bca9-78ff212d06e8"
dataFile <- paste0("data/Dep_", today, ".csv") # name file with today's date
download.file(URL, dataFile) # download file from repo
dat.deps <- read.csv(dataFile, sep = ";", stringsAsFactors = FALSE)
# Format date
dat.deps$date1 <- as.Date(substring(dat.deps$semaine, 1, 10))
dat.deps$date2 <- as.Date(substring(dat.deps$semaine, 12, 21))
# Rewrite time as days since beginning of the data
dat.deps$time <- dat.deps$date2 - min(dat.deps$date2)
# Compute data on total tests
dat.deps$Nb_tests_POS <- dat.deps$Nb_tests_PCR_TA_crible / (dat.deps$Prc_tests_PCR_TA_crible / 100)# Add name
deps <- read.csv("data/departement2020.csv", stringsAsFactors = FALSE)
# Turn into dictionnary
dps <- deps$libelle
names(dps) <- as.character(deps$dep)dat.deps$departement <- dps[as.character(dat.deps$dep)]V1
par(mfrow = c(35, 3))
for(idep in sort(unique(dat.deps$dep))){
tmp <- dat.deps[dat.deps$dep == idep, ]
plot(tmp$date2, tmp$Prc_susp_501Y_V1, ylim = c(0, 100), col = colsAge[as.character(tmp$cl_age90)], pch = pchAge[as.character(tmp$cl_age90)],
xlab = "date", ylab = "Proportion V1",
main = unique(tmp$departement))
# legend(x = min(dat.deps$date2), y = 100, legend = ages, pch = pchAge, col = colsAge)
}
V2/V3
par(mfrow = c(35, 3))
for(idep in sort(unique(dat.deps$dep))){
tmp <- dat.deps[dat.deps$dep == idep, ]
plot(tmp$date2, tmp$Prc_susp_501Y_V2_3, ylim = c(0, 100), col = colsAge[as.character(tmp$cl_age90)], pch = pchAge[as.character(tmp$cl_age90)],
xlab = "date", ylab = "Proportion V2V3",
main = unique(tmp$departement))
# legend(x = min(dat.deps$date2), y = 100, legend = ages, pch = pchAge, col = colsAge)
}